General information for g9349.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative ABC transporter G family member 23.
Parent gene
- The parent gene g9349 is located on chr_1: 2165214..2167824 (- 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_1 | g9349 | g9349.t1 | isoform | g9349.t1 | 2165214 | 2167824 |
| chr_1 | g9349 | g9349.t1 | exon | g9349.t1.exon1 | 2165214 | 2165424 |
| chr_1 | g9349 | g9349.t1 | cds | g9349.t1.CDS1 | 2165214 | 2165424 |
| chr_1 | g9349 | g9349.t1 | exon | g9349.t1.exon2 | 2165619 | 2165981 |
| chr_1 | g9349 | g9349.t1 | cds | g9349.t1.CDS2 | 2165619 | 2165981 |
| chr_1 | g9349 | g9349.t1 | exon | g9349.t1.exon3 | 2166043 | 2166588 |
| chr_1 | g9349 | g9349.t1 | cds | g9349.t1.CDS3 | 2166043 | 2166588 |
| chr_1 | g9349 | g9349.t1 | exon | g9349.t1.exon4 | 2166887 | 2167678 |
| chr_1 | g9349 | g9349.t1 | cds | g9349.t1.CDS4 | 2166887 | 2167678 |
| chr_1 | g9349 | g9349.t1 | exon | g9349.t1.exon5 | 2167730 | 2167824 |
| chr_1 | g9349 | g9349.t1 | cds | g9349.t1.CDS5 | 2167730 | 2167824 |
| chr_1 | g9349 | g9349.t1 | TSS | g9349.t1 | NA | NA |
| chr_1 | g9349 | g9349.t1 | TTS | g9349.t1 | NA | NA |
Sequences
>g9349.t1 Gene=g9349 Length=2007
ATGACAACCATTCAAGTTCGTCAAGTTAAAAAATCTTTTAAAACTACTGAAAATGTTTTA
AATAATTTCAGTTTATCAATTAAAACTGGTTCAATTTATGCATTGGTTGGTTCATCAGGA
TGTGGAAAAACAACATTTATAAATTGCCTTCTTGGCATTCAAAAAATTGATAAAGGTGAA
ATCAAAATTTTCAATCAAAATGTGAAACTTCAAAGTACTTCAAAACTTATTGGTTACATG
CCACAACAAATTTCACTTGCATCACAATTAACAATTAAAGAAACTTTTAAATATTTTGCA
TCATTACATTTGATTGATAAAAAATTTCTAAAAGAACGTACGGAAATGCTTTCTGACTTA
CTTTGCTTGCCACCAGAAGATTCTTTGATAAAAAATATCTCAGGTGGTGAACAACGAAGA
GTTTCTTTTGCTGTTGCTGTTTTGCATGATCCAAAATTGCTTATTCTTGATGAACCAACT
GTTGGACTTGATGTTGAAATAAGACAAAGAATTTGGAAATTTCTTCATCAACAATCAAGT
GAGAAAAATATCACAATTCTTTTTACAACTCAATATTTAACTGAAGTAGCTCAAGCTCAT
TGTTGTGGATTTTTAAGAAATGGAAATTTAATTGTTGAAAATTCACATGATAAATTGTTG
GAAAATTTCAATGTTGAGACTATCGATGAAGCTTTTTATAAAATTTGTTGTTTAGATGAA
GATCAAAAAATTAAAATTTGGAAAAATGAAGAAGAAATTGAGCAAGATTTGGTAAAAGTT
GCAAATTTTGGTACTTCATCGTTTGAAAATTCAGAAAATTTAATGAGATTTCAAGTCTTG
AAAGGATTGTTGACTAAAGAATGGCGAAGAATTAGACGAGCTTATATAGAAATATTTTTA
TTCTACATCTTTTCTTACTTCCTTCTTTCGGGCTATGCAAATACAATTGGAAAATTCCCA
GATGATCTTCGAATTGGAATTGTCAATTATGACTCAAAGCATTGTGAAAGTTTTAAATTT
TCCATGACTTTTGATGAATGTTTTAAAGGAAACATGTCATGTGAATATGTTAATAATTTA
GAAAAAATTATCAAAATTCCTTATGACACACATGAAGAAGCTTACAAAGATTTTTTAAAA
GGCAAAATTTTTGGATTTTTAATTATCAAAAAAAATTTTACAAAATCTTTGGAGAATGTT
TTGAATGCTTTAAATAAAGTTGAAGACGTTTTAGATCCATCAGCTTATCATTACTGCATG
CTTGTAAAATTAAAAGCATTTCGAGCTTTTGCTAAACTCATTCAAAAAATATCGACAATT
TGTGAAATTTTTGGTGCTGAAATGATGTTAAATGGAATAAATCATGAGCATACTTTTATG
AAAGATTCAAAAATTGACATAATGAGAAATCGATCACCAAATATGATACTTCTATTTGTT
TTTGCCATCACTTTAGCTCATTCTGGTCTGATAATTTATGAATGTCGATTAGAAGGAATT
TGGAATCGATCATTTGTCAATGGTCTAAAAATCACAGAACTTTTAGCTGCAAATTTGATT
CAATGTTTTTTAAATTCAACAATTATTTCAATTCAGATGATTTTTTATTTAAATTTTATC
ATAAAAGTTGAATTTATTGGCAGTTATTGGATGGCTTTCTTGATAATGTTTTTAGTAGCT
AATGTTGGTCATCTTCTTGGTCTTTTGAAAGCAATAGTTTTTGACAATATTTTTGTTCTT
ACTGGAATTGGCTGTGCTTATATTGCTTCAACTTGCTTTGTATCTGGACTATTTTGGCCT
ATTGAATTTGCACCAAAATTTATTCAAATTTTGAGTTATTATTTTCCAATTTCAATACCA
GCAATTGCCTTACATGAAGTAATTTTTAAAAGATCAGAAATATTTAGTAGAAACTTTCAA
ATTGCATTTTTTGCACTTATTTTACATGTTTTTATTTACATTTCTGTATCATTTTTGGTA
TTAAGGAGAAGAAAATTTATAACTTAA
>g9349.t1 Gene=g9349 Length=668
MTTIQVRQVKKSFKTTENVLNNFSLSIKTGSIYALVGSSGCGKTTFINCLLGIQKIDKGE
IKIFNQNVKLQSTSKLIGYMPQQISLASQLTIKETFKYFASLHLIDKKFLKERTEMLSDL
LCLPPEDSLIKNISGGEQRRVSFAVAVLHDPKLLILDEPTVGLDVEIRQRIWKFLHQQSS
EKNITILFTTQYLTEVAQAHCCGFLRNGNLIVENSHDKLLENFNVETIDEAFYKICCLDE
DQKIKIWKNEEEIEQDLVKVANFGTSSFENSENLMRFQVLKGLLTKEWRRIRRAYIEIFL
FYIFSYFLLSGYANTIGKFPDDLRIGIVNYDSKHCESFKFSMTFDECFKGNMSCEYVNNL
EKIIKIPYDTHEEAYKDFLKGKIFGFLIIKKNFTKSLENVLNALNKVEDVLDPSAYHYCM
LVKLKAFRAFAKLIQKISTICEIFGAEMMLNGINHEHTFMKDSKIDIMRNRSPNMILLFV
FAITLAHSGLIIYECRLEGIWNRSFVNGLKITELLAANLIQCFLNSTIISIQMIFYLNFI
IKVEFIGSYWMAFLIMFLVANVGHLLGLLKAIVFDNIFVLTGIGCAYIASTCFVSGLFWP
IEFAPKFIQILSYYFPISIPAIALHEVIFKRSEIFSRNFQIAFFALILHVFIYISVSFLV
LRRRKFIT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g9349.t1 | CDD | cd03230 | ABC_DR_subfamily_A | 4 | 210 | 8.23612E-53 |
| 8 | g9349.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 242 | 8.5E-57 |
| 3 | g9349.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 1 | 242 | 1.3E-110 |
| 5 | g9349.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 1 | 242 | 1.3E-110 |
| 4 | g9349.t1 | PANTHER | PTHR43038 | ATP-BINDING CASSETTE, SUB-FAMILY H, MEMBER 1 | 278 | 665 | 1.3E-110 |
| 6 | g9349.t1 | PANTHER | PTHR43038:SF2 | RH61964P | 278 | 665 | 1.3E-110 |
| 2 | g9349.t1 | Pfam | PF00005 | ABC transporter | 20 | 160 | 8.6E-28 |
| 1 | g9349.t1 | Pfam | PF12698 | ABC-2 family transporter protein | 300 | 658 | 2.7E-18 |
| 12 | g9349.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 293 | - |
| 21 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 294 | 313 | - |
| 15 | g9349.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 314 | 474 | - |
| 19 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 475 | 493 | - |
| 11 | g9349.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 494 | 513 | - |
| 20 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 514 | 537 | - |
| 13 | g9349.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 538 | 548 | - |
| 23 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 549 | 569 | - |
| 10 | g9349.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 570 | 575 | - |
| 18 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 576 | 601 | - |
| 16 | g9349.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 602 | 606 | - |
| 22 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 607 | 629 | - |
| 9 | g9349.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 630 | 640 | - |
| 17 | g9349.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 641 | 661 | - |
| 14 | g9349.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 662 | 668 | - |
| 32 | g9349.t1 | ProSitePatterns | PS00211 | ABC transporters family signature. | 133 | 147 | - |
| 34 | g9349.t1 | ProSiteProfiles | PS50893 | ATP-binding cassette, ABC transporter-type domain profile. | 4 | 232 | 19.228 |
| 33 | g9349.t1 | SMART | SM00382 | AAA_5 | 29 | 216 | 6.2E-9 |
| 7 | g9349.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 225 | 5.99E-52 |
| 27 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 294 | 316 | - |
| 26 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 475 | 497 | - |
| 31 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 517 | 539 | - |
| 25 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 546 | 568 | - |
| 28 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 578 | 600 | - |
| 30 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 607 | 629 | - |
| 29 | g9349.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 639 | 661 | - |
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:0005524 | ATP binding | MF |
| GO:0016887 | ATP hydrolysis activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01990 (ABC-2 type transport system ATP-binding protein)
Pathway
This gene does not belong to any 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. There were no conditions that were differentially expressed