General information for g8999.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Collagen alpha-1(XXVII) chain B.
Parent gene
- The parent gene g8999 is located on chr_2: 34461827..34476036 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g8999 | g8999.t1 | TTS | g8999.t1 | 34461207 | 34461207 |
| chr_2 | g8999 | g8999.t1 | isoform | g8999.t1 | 34461827 | 34476036 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon1 | 34461827 | 34462324 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS1 | 34461827 | 34462324 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon2 | 34462377 | 34462792 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS2 | 34462377 | 34462792 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon3 | 34462859 | 34462939 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS3 | 34462859 | 34462939 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon4 | 34462998 | 34463072 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS4 | 34462998 | 34463072 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon5 | 34463131 | 34463182 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS5 | 34463131 | 34463182 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon6 | 34463241 | 34463268 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS6 | 34463241 | 34463268 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon7 | 34463329 | 34463355 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS7 | 34463329 | 34463355 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon8 | 34463417 | 34463477 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS8 | 34463417 | 34463477 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon9 | 34463539 | 34463599 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS9 | 34463539 | 34463599 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon10 | 34463790 | 34463827 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS10 | 34463790 | 34463827 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon11 | 34463994 | 34464056 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS11 | 34463994 | 34464056 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon12 | 34464205 | 34464250 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS12 | 34464205 | 34464250 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon13 | 34464454 | 34464506 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS13 | 34464454 | 34464506 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon14 | 34464572 | 34464652 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS14 | 34464572 | 34464652 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon15 | 34464711 | 34464764 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS15 | 34464711 | 34464764 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon16 | 34464825 | 34464887 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS16 | 34464825 | 34464887 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon17 | 34465016 | 34465051 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS17 | 34465016 | 34465051 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon18 | 34465114 | 34465185 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS18 | 34465114 | 34465185 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon19 | 34465290 | 34465344 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS19 | 34465290 | 34465344 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon20 | 34465405 | 34465430 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS20 | 34465405 | 34465430 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon21 | 34465489 | 34465569 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS21 | 34465489 | 34465569 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon22 | 34466136 | 34466180 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS22 | 34466136 | 34466180 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon23 | 34466244 | 34466279 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS23 | 34466244 | 34466279 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon24 | 34466412 | 34466492 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS24 | 34466412 | 34466492 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon25 | 34467620 | 34467631 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS25 | 34467620 | 34467631 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon26 | 34467776 | 34467830 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS26 | 34467776 | 34467830 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon27 | 34467893 | 34467954 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS27 | 34467893 | 34467954 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon28 | 34468014 | 34468043 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS28 | 34468014 | 34468043 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon29 | 34468109 | 34468141 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS29 | 34468109 | 34468141 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon30 | 34468208 | 34468262 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS30 | 34468208 | 34468262 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon31 | 34468339 | 34468374 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS31 | 34468339 | 34468374 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon32 | 34468441 | 34468484 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS32 | 34468441 | 34468484 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon33 | 34468580 | 34468631 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS33 | 34468580 | 34468631 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon34 | 34468690 | 34468709 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS34 | 34468690 | 34468709 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon35 | 34468773 | 34468803 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS35 | 34468773 | 34468803 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon36 | 34468870 | 34468883 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS36 | 34468870 | 34468883 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon37 | 34468943 | 34468984 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS37 | 34468943 | 34468984 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon38 | 34469043 | 34469090 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS38 | 34469043 | 34469090 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon39 | 34469150 | 34469185 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS39 | 34469150 | 34469185 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon40 | 34469405 | 34469441 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS40 | 34469405 | 34469441 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon41 | 34469508 | 34469551 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS41 | 34469508 | 34469551 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon42 | 34469675 | 34469711 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS42 | 34469675 | 34469711 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon43 | 34469790 | 34469815 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS43 | 34469790 | 34469815 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon44 | 34469877 | 34469895 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS44 | 34469877 | 34469895 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon45 | 34469956 | 34469963 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS45 | 34469956 | 34469963 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon46 | 34470047 | 34470091 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS46 | 34470047 | 34470091 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon47 | 34470154 | 34470180 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS47 | 34470154 | 34470180 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon48 | 34470715 | 34470765 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS48 | 34470715 | 34470765 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon49 | 34470879 | 34470915 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS49 | 34470879 | 34470915 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon50 | 34470978 | 34471005 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS50 | 34470978 | 34471005 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon51 | 34471279 | 34471324 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS51 | 34471279 | 34471324 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon52 | 34471392 | 34471409 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS52 | 34471392 | 34471409 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon53 | 34471477 | 34471494 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS53 | 34471477 | 34471494 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon54 | 34471562 | 34471576 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS54 | 34471562 | 34471576 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon55 | 34471648 | 34471677 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS55 | 34471648 | 34471677 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon56 | 34471738 | 34471764 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS56 | 34471738 | 34471764 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon57 | 34471906 | 34471946 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS57 | 34471906 | 34471946 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon58 | 34471998 | 34472046 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS58 | 34471998 | 34472046 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon59 | 34472108 | 34472133 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS59 | 34472108 | 34472133 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon60 | 34472187 | 34472259 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS60 | 34472187 | 34472259 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon61 | 34472323 | 34472363 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS61 | 34472323 | 34472363 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon62 | 34472513 | 34472541 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS62 | 34472513 | 34472541 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon63 | 34472605 | 34472642 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS63 | 34472605 | 34472642 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon64 | 34472928 | 34472973 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS64 | 34472928 | 34472973 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon65 | 34473101 | 34473145 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS65 | 34473101 | 34473145 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon66 | 34473219 | 34473262 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS66 | 34473219 | 34473262 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon67 | 34473329 | 34473372 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS67 | 34473329 | 34473372 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon68 | 34473431 | 34473443 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS68 | 34473431 | 34473443 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon69 | 34473513 | 34473545 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS69 | 34473513 | 34473545 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon70 | 34473820 | 34473855 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS70 | 34473820 | 34473855 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon71 | 34473917 | 34473989 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS71 | 34473917 | 34473989 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon72 | 34474209 | 34474241 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS72 | 34474209 | 34474241 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon73 | 34474303 | 34474326 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS73 | 34474303 | 34474326 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon74 | 34474385 | 34474494 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS74 | 34474385 | 34474494 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon75 | 34474550 | 34474624 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS75 | 34474550 | 34474624 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon76 | 34474863 | 34475826 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS76 | 34474863 | 34475826 |
| chr_2 | g8999 | g8999.t1 | exon | g8999.t1.exon77 | 34475884 | 34476036 |
| chr_2 | g8999 | g8999.t1 | cds | g8999.t1.CDS77 | 34475884 | 34476036 |
| chr_2 | g8999 | g8999.t1 | TSS | g8999.t1 | NA | NA |
Sequences
>g8999.t1 Gene=g8999 Length=5202
ATGATAACGAGCTTGGGGATTCCTAACCTTCCTAATGGGATCAATGCATCGACTATTGGA
ATGTGTGGAACTCAACGAAATGCTTATCAAAAATATAAAGCTGCTGCTTATTCAATTAAC
AAGGGAACAATGATTACTGTGGCCACACGTGATTTATTTCCTGACAATTTTCCACTTGAT
TTTTCAATTATGGTTGTATTGAAAGCAAAACAAAGATCATCTCGTGTTCCTGTCTTTTCA
ATTTATACATCAGAAAGTGAAGAATCACTTGTGCTTTATGTTGGTTCTGAAATTTCTTTA
CTTTATCAAGATGACTCAATTATTGATGATAATTTTGTTAGTTTTGATGCAAGCACAAAT
GACTTGAAATGGCATCGAATTGCAATGAGTGTTAAAGGAGATTCATTGACTTTAATTTTT
GATTGCAATAAACAAATTACAAGAAAAATTTCAAGATCATTAAGCTCAAGGATTAGTAAT
GATGGTTTGGTTTTTATGGGTGTGCAATTAGATGAAGAAGAAGAATATTTCACTGGTGAT
TTGCAATTTTTAACAATCACTAATGTGCCTGATTCTGCTTATGAATTATGTACAAAATAT
GCACCAGATTGTGCTGGTGGTTTTTATGAAGAACAAACAACTGTCTTAAAAGAATCAACA
ACTCGTAGAAATTCATCAAAATCTAATGGCAAAAGTAGCAAGTCAAAATCTAAAAGTAGC
AAAAGTTCAAAAAAGTCTCGTGATAGAACAACTTTGAGACAAGTCAATGATGAATCACGT
GACAATTCAATTGAATTAGAAAGTCTTGGACTTGGTTTTAATGGTGAAGATGATTATTAT
GATTCATTAAATTCAGGAAATGAAGATGAAATCTTTAGAACTACTGAAACTATAATTCGA
CCAACAACAGTGACTTATGACTTTAATAATAATAATGAAGATTCTTATACACATCGAAAT
GTTGATTATAATTCTGAAGTTAATTATAATAATGAAGAATATGGTGGACAAGAGTATGAT
GCAAGTGCTAATGAAAGTATAAATGAAAATGGAAATTTCACTACAATCATTAATGGTGTT
AAAATTAAATCTTTACCTGGTCCAAGAGGAATTGTTGGACCAAAAGGTCAAAAAGGTGAA
AAGGGAGAGCCTGGTGAAGACGGACGAGAAGGATTATCAGGAACATTAGGATCTCCTGGT
GCTCCCGGACATGTTTTTATCATACCATTGGGTCAAAGTGGTAATGAAAAGGGTCCTGAT
ACTCAAGCAGAAGCATTTAGACAAATGCTTGCACAACATATGCTTGCAATGAAAGGACCG
GAAGGACCAATGGGATTGACTGGTTTACCAGGATTACAAGGAAAACCGGGCGAACAAGGT
CCAAAAGGTGATGTTGGAGACCAAGGCGAAATGGGGCCTATTGGAATGAGAGGTCCAATG
GGTTTAACTGGTCGCGAAGGCAAAAGAGGTAGAGCTGGAAGAGATGGTGAAAGAGGAATA
GCTGGACCACAAGGTTTAAAAGGCGAACCTGGTCCATTAGGTCCAATTGGAATTCCCGGA
GAAAAAGGAGATCGTGGTCGACCTGGATCAGTTGGAGAAAAAGGAAACAAAGGTGCTGAA
GGCATTCATGGTGATGATGGAGCACAAGGTCTGCAAGGAGTTCCTGGTGAAATTGGACCT
CGTGGATTTACAGGAGCTAGAGGCTTACCAGGTCCAATTGGACCCGCGGGGATTCCCGGA
AGTGAAGGTTTACAGGGAAGTAAAGGAAATATGGGCTTGACTGGTCCAATAGGTCCTCCA
GGCCCGATTGGTCCAAAGGGCCATCAAGGAATACAAGGCAATGTGGGACCGCAAGGAAAT
TCCGGTCCACCAGGACCTCCTGGAAAAACAGGCTACCCTGGTAGTCCCGGAGCTCCTGGA
GCTGATGGCCGTGTTGGAAATCCCGGATTAACGGGACAAAAAGGAGAAGTTGGTCCACAA
GGAGTACCAGGACAAATTGGCTTTCCAGGAAGTAAAGGTCCAAAGGGTGATGAAGGAGCA
AGAGGAGCACCTGGAGAAAAAGGTGATAGAGGAGACAAAGGAGAAACTGGTGAAAAAGGA
GATAGAGGTGAACCTGGTGAGAGAGGATTGATTGGGCCAATTGGAATGACAGGCGCTGAA
GGTCCTGAAGGGCCGAAAGGTTTTGAAGGTCCAAGAGGTGAAGCTGGAGCAATTGGATTA
CCGGGCGAAAAAGGAAAACAAGGCTTGAACGGATTTCCAGGTTATCCTGGAACAACTGGT
GAAAAAGGTGACAAAGGAAGTGTTGGAACTACTGGACCTGTTGGGTTAAAAGGTGAAAGG
GGAGTTGCTGGTCAACAAGGCGAACGTGGTGAAACTGGTCCGAGAGGTTTTAGAGGCTCT
AGAGGAAAAACAGGAAGCGTTGGTGATCAAGGAAGTCCTGGTGAAAAGGGCCCTCCAGGA
GAACAGGGAGTACCTGGAGCTGAAGGTTTGAGAGGGGCACAAGGACCAATGGGAAATCCA
GGAAAAGATGGAAAACCTGGTATTCCTGGAATGCCTGGAGAAAGAGGTGAACGAGGAGAA
ACCGGAGCTACTGGTGCGACTGGGCCAGTCGGTCAAATGGGAGTTCAAGGTCCTCCTGGA
GAGACTGGAAGCACAGGAGAAATGGGACAACCAGGCAATCCTGGACCTCCTGGAGAACCA
GGTTTAAATGGAGAAGCTGGAAAAGAAGGTCCTGTTGGTGCACCTGGTTTAATGGGAAAA
CAAGGACCTCCGGGAATGCAAGGGCCACCAGGATTTCCCGGTGAAAGAGGACTTCAAGGA
TTACCAGGATTAGTTGGACAAAAAGGAGAAATTGGTCCACAAGGTTTTCAAGGAGTTCAA
GGTGACAAGGGTCAACAGGGTGCTCCAGGAAATGAAGGAATACAAGGATTGCAAGGAAGA
ACTGGCCCACCGGGAATTTCTGGAAGCCCAGGACAAAAAGGTGAACGAGGAGAAATTGGA
CCAGCTGGTGCAGTTGGTAGAGATGGACTTCCTGGATTAAGAGGCTTAACAGGACCACCT
GATGGAGATAAAGGTGACCAAGGAAGTCCGGGTGAAAAAGGCGAAAAAGGAAATAGCGGT
GAAATTGGGCCTCCGGGAGCTGTTGGACAAATTGGTATTCCTGGGCCGATGGGACTTCAA
GGTCTACCTGGTGATCCCGGTAGTATTGGCGCTCCTGGTCCTCAAGGCATCAAAGGTGAA
AGTGGACCTAGAGGTTTACAAGGAAACCAAGGAGCAGTGGGCGTTATTGGACCACCAGGA
TTAACTGGTCCAAAAGGAAATCAGGGAGATCGTGGTCTACAAGGAATGCCAGGAATAATG
GGACAGAAAGGGGAACCAGGAAAAACTGGAGAACCAGGAGTTGATGGTCCTCAGGGAAAA
AGAGGAGAAATTGGAATGCCTGGACCAATTGGCGAAACAGGACCTGCAGGTTTGCCAGGC
GGAATCGGCCCTGATGGACCTGTTGGACCACAAGGCGAAAGAGGTCAAAAGGGAGAAATG
GGAAAACAGGGTGTAGCAGGAGTTCCAGGAAAAAGAGGAAATCCTGGCAATGAAGGACCA
AAAGGAGCTATTGGTGTACCAGGTTTACCGGGAAATGCTGGCGAGCCAGGTCCAAAAGGA
ATAAAAGGTGATATTGGAAGAGATGGAGAAGATGGTAAAAAAGGAGAAAAAGGAAATCAA
GGAATAACTGGCGTACAAGGCCCTCCCGGTGTTCAAGGACCTGAAGGTAGAATTGGAGCA
GACGGAAAAGCAGGCGCTCAAGGAAGTCCGGGATTGCCTGGTGAAAAAGGCGACCGTGGA
AATGATGGACCTAGAGGAGGCATTGGCATTCCAGGCCCAGTTGGTGCAAGAGGTTCAGAA
GGGCCAAGAGGTCCCCTCGGTCCAAAGGGAGAACAAGGTGATATTGGCGAACCAGGAAAA
ATGGGTTTACCTGGGAAAGAAGGCCCAGTCGGGGCTCAGGGTTTGCAAGGAGAAAAAGGA
GAAAGAGGAAAGAGAGGAATGAAGGGTCATAGAGGTGACCTTGGTGTAGCAGGAATCAAA
GGTGATATGGGTGAAAAAGGAAATAAAGGTCCAAAAGGTGACCAAGGAGAAGTTGGACCA
AAGGGCGAAATAGGACTGACTGGACCAATCGGACCGAAAGGCAATGACGGCCCTGCTGGC
ATTCAAGGTGAAATGGGGCCAATGGGACCGAAAGGTGTCGCCGGAAATGATGGTCAAAAA
GGAGAAATGGGTCTTCCAGGTCCAGCTGGTCCACCTGGTCCACCATCAGAAGCTCCCTTA
ATCCCACCAGAATTACTTTTTAGTGAATTCAGTATGACAAAAGGCGAAGAAAGATTCAGA
CGTGATTTAGAAAAAATTGAAAAACTAGCAGCAGAAATTGAAGATGCTGATATTGATGAG
TTGATGGGAGTTGAAAAGAAAACAAGAAAATCTTCGTCATCTACAAAAAAGAAAAAAGCT
AAAGAAGAATTATCATCAAAATTCTTAGAAATGTACAGTTCAATTTATTCAATGAGACAA
GAATTAGAAAAAGTTAGAAATCCAGATGGAACAAAAGAAAATCCAGCGCGATCATGCAGA
GATCTTTGGTATGGCCATCAAAATTATGAAAATGGCTGGTATTGGATTGATCCAAATGAT
GGAATGAGAGATGATGCTATTTATGTTTATTGTAATATGACAGCAGAAGGTGAAACTTGT
GTTCATCCAGACATTCATAGTTCACAAATGCCAAATATCCCATGGCGAAAGGAAAGCGAT
CGAACTGATTGGTTCTCAAACTTACGTGGTGGTTTCAAAATTTCTTATGACACAGTTGGA
GTTGTACAAATGACTTTCCTACGGCTGCTTTCACAAGAAGCTTACCAAAATTTCACTTAT
ACTTGCATGAATAGTGTTGCATGGTTCAACAGTCGATACGAAAACTATGATTTGTCAGTG
CGGCTTTTGGGAGAAAATGAAATCGAAATTGGATACGACACACCTATAAAACCGATAATT
TTAAAAGACGGTTGCTTATCAGGGCGAGCTAAAAGTGAAACAGTTTTTGAAGTAAGAACA
AAAAAGACCCAATTTCTTCCCATTGTTGATTTTTATCCGCTTGATTATGGACAACAGCAG
CAAGCTTTCGGTTTTCAAATGGGTCCTGTTTGCTTCAAATAA
>g8999.t1 Gene=g8999 Length=1733
MITSLGIPNLPNGINASTIGMCGTQRNAYQKYKAAAYSINKGTMITVATRDLFPDNFPLD
FSIMVVLKAKQRSSRVPVFSIYTSESEESLVLYVGSEISLLYQDDSIIDDNFVSFDASTN
DLKWHRIAMSVKGDSLTLIFDCNKQITRKISRSLSSRISNDGLVFMGVQLDEEEEYFTGD
LQFLTITNVPDSAYELCTKYAPDCAGGFYEEQTTVLKESTTRRNSSKSNGKSSKSKSKSS
KSSKKSRDRTTLRQVNDESRDNSIELESLGLGFNGEDDYYDSLNSGNEDEIFRTTETIIR
PTTVTYDFNNNNEDSYTHRNVDYNSEVNYNNEEYGGQEYDASANESINENGNFTTIINGV
KIKSLPGPRGIVGPKGQKGEKGEPGEDGREGLSGTLGSPGAPGHVFIIPLGQSGNEKGPD
TQAEAFRQMLAQHMLAMKGPEGPMGLTGLPGLQGKPGEQGPKGDVGDQGEMGPIGMRGPM
GLTGREGKRGRAGRDGERGIAGPQGLKGEPGPLGPIGIPGEKGDRGRPGSVGEKGNKGAE
GIHGDDGAQGLQGVPGEIGPRGFTGARGLPGPIGPAGIPGSEGLQGSKGNMGLTGPIGPP
GPIGPKGHQGIQGNVGPQGNSGPPGPPGKTGYPGSPGAPGADGRVGNPGLTGQKGEVGPQ
GVPGQIGFPGSKGPKGDEGARGAPGEKGDRGDKGETGEKGDRGEPGERGLIGPIGMTGAE
GPEGPKGFEGPRGEAGAIGLPGEKGKQGLNGFPGYPGTTGEKGDKGSVGTTGPVGLKGER
GVAGQQGERGETGPRGFRGSRGKTGSVGDQGSPGEKGPPGEQGVPGAEGLRGAQGPMGNP
GKDGKPGIPGMPGERGERGETGATGATGPVGQMGVQGPPGETGSTGEMGQPGNPGPPGEP
GLNGEAGKEGPVGAPGLMGKQGPPGMQGPPGFPGERGLQGLPGLVGQKGEIGPQGFQGVQ
GDKGQQGAPGNEGIQGLQGRTGPPGISGSPGQKGERGEIGPAGAVGRDGLPGLRGLTGPP
DGDKGDQGSPGEKGEKGNSGEIGPPGAVGQIGIPGPMGLQGLPGDPGSIGAPGPQGIKGE
SGPRGLQGNQGAVGVIGPPGLTGPKGNQGDRGLQGMPGIMGQKGEPGKTGEPGVDGPQGK
RGEIGMPGPIGETGPAGLPGGIGPDGPVGPQGERGQKGEMGKQGVAGVPGKRGNPGNEGP
KGAIGVPGLPGNAGEPGPKGIKGDIGRDGEDGKKGEKGNQGITGVQGPPGVQGPEGRIGA
DGKAGAQGSPGLPGEKGDRGNDGPRGGIGIPGPVGARGSEGPRGPLGPKGEQGDIGEPGK
MGLPGKEGPVGAQGLQGEKGERGKRGMKGHRGDLGVAGIKGDMGEKGNKGPKGDQGEVGP
KGEIGLTGPIGPKGNDGPAGIQGEMGPMGPKGVAGNDGQKGEMGLPGPAGPPGPPSEAPL
IPPELLFSEFSMTKGEERFRRDLEKIEKLAAEIEDADIDELMGVEKKTRKSSSSTKKKKA
KEELSSKFLEMYSSIYSMRQELEKVRNPDGTKENPARSCRDLWYGHQNYENGWYWIDPND
GMRDDAIYVYCNMTAEGETCVHPDIHSSQMPNIPWRKESDRTDWFSNLRGGFKISYDTVG
VVQMTFLRLLSQEAYQNFTYTCMNSVAWFNSRYENYDLSVRLLGENEIEIGYDTPIKPII
LKDGCLSGRAKSETVFEVRTKKTQFLPIVDFYPLDYGQQQQAFGFQMGPVCFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g8999.t1 | Coils | Coil | Coil | 1456 | 1476 | - |
| 18 | g8999.t1 | Gene3D | G3DSA:2.60.120.200 | - | 1 | 205 | 2.1E-36 |
| 19 | g8999.t1 | Gene3D | G3DSA:2.60.120.1000 | - | 1512 | 1732 | 5.7E-79 |
| 24 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 215 | 263 | - |
| 30 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 215 | 236 | - |
| 26 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 244 | 263 | - |
| 25 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 369 | 389 | - |
| 28 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 484 | 514 | - |
| 34 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 669 | 713 | - |
| 23 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 679 | 706 | - |
| 36 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 757 | 824 | - |
| 29 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 862 | 894 | - |
| 33 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 975 | 995 | - |
| 35 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1019 | 1044 | - |
| 32 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1170 | 1201 | - |
| 31 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1230 | 1283 | - |
| 27 | g8999.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1329 | 1379 | - |
| 13 | g8999.t1 | PANTHER | PTHR24023:SF937 | - | 347 | 709 | 0.0 |
| 16 | g8999.t1 | PANTHER | PTHR24023 | COLLAGEN ALPHA | 347 | 709 | 0.0 |
| 11 | g8999.t1 | PANTHER | PTHR24023:SF937 | - | 708 | 883 | 0.0 |
| 14 | g8999.t1 | PANTHER | PTHR24023 | COLLAGEN ALPHA | 708 | 883 | 0.0 |
| 12 | g8999.t1 | PANTHER | PTHR24023:SF937 | - | 880 | 1731 | 0.0 |
| 15 | g8999.t1 | PANTHER | PTHR24023 | COLLAGEN ALPHA | 880 | 1731 | 0.0 |
| 8 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 438 | 494 | 7.1E-9 |
| 3 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 472 | 530 | 1.3E-8 |
| 2 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 493 | 550 | 9.8E-7 |
| 4 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 946 | 1004 | 2.1E-7 |
| 7 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 1020 | 1073 | 7.7E-7 |
| 6 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 1163 | 1220 | 1.0E-6 |
| 5 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 1210 | 1263 | 2.1E-7 |
| 1 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 1319 | 1377 | 8.0E-9 |
| 9 | g8999.t1 | Pfam | PF01391 | Collagen triple helix repeat (20 copies) | 1379 | 1437 | 4.1E-9 |
| 10 | g8999.t1 | Pfam | PF01410 | Fibrillar collagen C-terminal domain | 1509 | 1732 | 3.0E-82 |
| 37 | g8999.t1 | ProSiteProfiles | PS51461 | Fibrillar collagen C-terminal non-collagenous (NC1) domain profile. | 1509 | 1733 | 79.374 |
| 22 | g8999.t1 | SMART | SM00210 | TSPN_2 | 1 | 190 | 5.5E-15 |
| 21 | g8999.t1 | SMART | SM00038 | COLFI_2 | 1508 | 1733 | 5.4E-86 |
| 17 | g8999.t1 | SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 5 | 204 | 1.02E-21 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005201 | extracellular matrix structural constituent | MF |
KEGG
Orthology
- This transcript has been annotated with K19721 (collagen type V/XI/XXIV/XXVII, alpha)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
