General information for g5855.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Kin of IRRE-like protein 1.
Parent gene
- The parent gene g5855 is located on chr_2: 12414486..12430349 (+ 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 | g5855 | g5855.t1 | isoform | g5855.t1 | 12414486 | 12430349 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon1 | 12414486 | 12414516 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS1 | 12414486 | 12414516 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon2 | 12416217 | 12416346 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS2 | 12416217 | 12416346 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon3 | 12416447 | 12416655 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS3 | 12416447 | 12416655 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon4 | 12416713 | 12416789 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS4 | 12416713 | 12416789 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon5 | 12416851 | 12416887 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS5 | 12416851 | 12416887 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon6 | 12419723 | 12419926 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS6 | 12419723 | 12419926 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon7 | 12420371 | 12420516 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS7 | 12420371 | 12420516 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon8 | 12423813 | 12423957 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS8 | 12423813 | 12423957 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon9 | 12424852 | 12424982 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS9 | 12424852 | 12424982 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon10 | 12425558 | 12425717 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS10 | 12425558 | 12425717 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon11 | 12428141 | 12428434 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS11 | 12428141 | 12428434 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon12 | 12428509 | 12428650 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS12 | 12428509 | 12428650 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon13 | 12428721 | 12428905 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS13 | 12428721 | 12428905 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon14 | 12428996 | 12429180 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS14 | 12428996 | 12429180 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon15 | 12429298 | 12429448 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS15 | 12429298 | 12429448 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon16 | 12429948 | 12430012 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS16 | 12429948 | 12430012 |
| chr_2 | g5855 | g5855.t1 | exon | g5855.t1.exon17 | 12430092 | 12430349 |
| chr_2 | g5855 | g5855.t1 | cds | g5855.t1.CDS17 | 12430092 | 12430349 |
| chr_2 | g5855 | g5855.t1 | TSS | g5855.t1 | NA | NA |
| chr_2 | g5855 | g5855.t1 | TTS | g5855.t1 | NA | NA |
Sequences
>g5855.t1 Gene=g5855 Length=2550
ATGCAATCGACAGAAAAGGCAGAAAAGACTGTAAAAACAATAGAGAAAACTGCAGTAGAG
GGAAGAAAAGTTTCACTTCCATGTCCACTTGCAGCACCGTCCAGAGATAAAGTTTATATG
GTCTTATGGTTCAAAAATGATGTAAAAATTCCAATTTATAGTTTTGATGTTCGTGGAAAA
CCTTTAACAGACGCCCGACATTGGTCAGCACCGGAAATTTTCGGATCACGTGCCAAATTT
AATACTGACGTTGAACCAGCAGTGCTTGATATCGAAGATATTCGACGACACGATGAGGGA
ATTTATCGATGTCGTGTAGACTTTCGTACAAGTCAGACACAAAGTTTTAGATATAATTTG
ACTGTTATTATTTTACCTGAATATCCTGTAATATTAAATCGATGGGGTCGCCAATTAAAT
GGCACAATACTTGGACCTAAAGAAGAGGGCGATGACGTTTTGCTTACATGTCGTGTAGTT
GGTGGTCGACCACCACCTCAAGTTCGATGGCTCGTAAATGGATTGATTGTTGACGAGCAG
GTTGAACAGCAGACGGGTGATGTCACCGAAAATCGATTAATGTGGCCTTCCGTCGCACGA
TCAGATTTAAATTCAATCTTCACTTGTCAAGCTATAAATACACAGCTTGTCGAACCGCGT
GAAAGCAGTTATGTCTTGGATCTTCATTTAAAACCCTTGACAGTTGAGATTGTAAACAAA
AAACTTCCACTTGTAGCCGATCGCCGTTATGAAGTGCAATGTGAATCTAGTGGATCTCGA
CCCAATGCTATCATCACATGGTATAAGGGAAAAAGACAATTGAGAAGAGCTAAGGAAGAA
GCGCTCAACAACATCACAAAGTCAATTCTCAATTTCGTACCAACAACAGATGATGATGGT
AAATTGATAACGTGCCGTGCAGAAAACCCAAAAGTTTCAGGGCTGTTTCTTGAAACAACG
TGGAAGATTGAAGTTATATATCCACCACTCGTCAACCTTCGTCTCGGTTCAACATTAATA
GTGGACGACATAAAAGAAGGAGATGATTTATACATGGAATGTCAAATTCAGGCTAACCCG
AAATTCTCGAAAATGTATTGGATGCATGATGGAATTTTGATATCACACAACGCAAGTGCA
CGTGTAATACGATCAAATCAGAGTTTGGTGCTACAGAAAATTACACGAAACACGAGTGGG
AATTATTCGTGTAGTGCAATCAATGCTGAAGGCGAGACTGTGAGCAATCAATTGTCTCTG
CGAGTGAAATATGCACCAGTTTGTAAAGTCGATAAGACAATTATTGTTGGAGCATTTCGA
AGTGAACATTTAAATGTAATATGTGAAGTAAATGCAGATCCACAACCGAGATCATTCAAA
TGGAAATTTAATAGTTCCGGTGAGACTTACGAGTTGTCGAAGGAACGACATTACAAGAAT
GGGTCGAAGAGTATTCTACAATATACGCCCATTATGGATCAAGACTATGGCACACTTACT
TGCACGGGTCAAAATGAAGTTGGAGAGCAGACAGTGCCATGTGTCTTTCAAGTAATTTTG
GCAGCTTTACCATCACCCGTCCGCAATTGCTCAATTAACAACCAAACACTTCATTCACTT
GAGATTCAATGCATACCGGGCTATGATGGTGGCTTACCACAGATATTTTTACTTGAACTG
ATTGCAATAAGAAGTGGAAAATTAAGATTAAATCTCACAAATGTGGATGAACCCTCATTT
AATATTGATTCATTGGACGCTTACACATCATTCGACACATATGGGGATGATGCATTAAAG
GCTGTAGTGTTTGCTGTCAATCAGAAGGGTCGAAGTAGTGGTGTGCTTGTGAGAGAATTT
ATACTAGACAACAGTATTGAGAGTAGAGCAGCTATAACAAATGCCGCACTAGATCTCTCG
CCTGTATTGTTGGGAGTTTTATTCACACTATTGCTACTATGTATCGTTATTTTTGTAAAA
GTTTATTGTAATCGTACATCAGCGACAATGAGAGACTTGAATAGCGATATGAAGCAAAAT
ATGAATAGCATAAGCTACAAGCATGATACACAAAAGAAGAATGCACGATGGCAGAATAGT
GATGGCAAAACAAAAGAAATGAAAGCATCGAATGATATTTTAGAAGATGAAAAGAATCCT
GATGTTATTCCACAAGGTAAAAAGACTGATAAGCCATTGGGTGCTACTACTGCAAATAGT
AATTATGCATCAACAATCGATGATGAAACAGTAACAAACACAGAATGGACTTGCGGATCT
GTAAATTCTTATTACAATCAATTTATGCATCAAAACACACGCCTCAAAGAAACATCATCG
CTCTCAACAGACTCAACGTTAGTTGCTTCAACACCAAAGTCACAATCACTTGCATCAAGT
TGTCACGTTGAAGTGACACCATCAAATCCATTTTGTAGTACGATGAAAAGCAACGGTGAA
ATGCCGACACATTCAATTGACTACGATTTTAATATCAATGCTATCAAGACACTGCTGATG
ACCACAAAAGTACCCGAAAGTTGTGTGTGA
>g5855.t1 Gene=g5855 Length=849
MQSTEKAEKTVKTIEKTAVEGRKVSLPCPLAAPSRDKVYMVLWFKNDVKIPIYSFDVRGK
PLTDARHWSAPEIFGSRAKFNTDVEPAVLDIEDIRRHDEGIYRCRVDFRTSQTQSFRYNL
TVIILPEYPVILNRWGRQLNGTILGPKEEGDDVLLTCRVVGGRPPPQVRWLVNGLIVDEQ
VEQQTGDVTENRLMWPSVARSDLNSIFTCQAINTQLVEPRESSYVLDLHLKPLTVEIVNK
KLPLVADRRYEVQCESSGSRPNAIITWYKGKRQLRRAKEEALNNITKSILNFVPTTDDDG
KLITCRAENPKVSGLFLETTWKIEVIYPPLVNLRLGSTLIVDDIKEGDDLYMECQIQANP
KFSKMYWMHDGILISHNASARVIRSNQSLVLQKITRNTSGNYSCSAINAEGETVSNQLSL
RVKYAPVCKVDKTIIVGAFRSEHLNVICEVNADPQPRSFKWKFNSSGETYELSKERHYKN
GSKSILQYTPIMDQDYGTLTCTGQNEVGEQTVPCVFQVILAALPSPVRNCSINNQTLHSL
EIQCIPGYDGGLPQIFLLELIAIRSGKLRLNLTNVDEPSFNIDSLDAYTSFDTYGDDALK
AVVFAVNQKGRSSGVLVREFILDNSIESRAAITNAALDLSPVLLGVLFTLLLLCIVIFVK
VYCNRTSATMRDLNSDMKQNMNSISYKHDTQKKNARWQNSDGKTKEMKASNDILEDEKNP
DVIPQGKKTDKPLGATTANSNYASTIDDETVTNTEWTCGSVNSYYNQFMHQNTRLKETSS
LSTDSTLVASTPKSQSLASSCHVEVTPSNPFCSTMKSNGEMPTHSIDYDFNINAIKTLLM
TTKVPESCV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g5855.t1 | CDD | cd00096 | Ig | 153 | 213 | 9.59696E-6 |
| 21 | g5855.t1 | CDD | cd00096 | Ig | 352 | 415 | 2.69015E-5 |
| 20 | g5855.t1 | CDD | cd00096 | Ig | 448 | 511 | 1.03317E-4 |
| 11 | g5855.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 11 | 122 | 1.4E-18 |
| 15 | g5855.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 130 | 229 | 4.5E-13 |
| 13 | g5855.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 233 | 330 | 5.4E-17 |
| 12 | g5855.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 340 | 430 | 5.1E-15 |
| 14 | g5855.t1 | Gene3D | G3DSA:2.60.40.10 | Immunoglobulins | 431 | 519 | 1.6E-9 |
| 34 | g5855.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 688 | 708 | - |
| 33 | g5855.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 689 | 708 | - |
| 5 | g5855.t1 | PANTHER | PTHR23278 | SIDESTEP PROTEIN | 6 | 691 | 1.9E-220 |
| 1 | g5855.t1 | Pfam | PF07686 | Immunoglobulin V-set domain | 17 | 122 | 1.9E-8 |
| 4 | g5855.t1 | Pfam | PF13927 | Immunoglobulin domain | 148 | 213 | 1.4E-8 |
| 2 | g5855.t1 | Pfam | PF08205 | CD80-like C2-set immunoglobulin domain | 247 | 312 | 7.5E-8 |
| 3 | g5855.t1 | Pfam | PF13927 | Immunoglobulin domain | 344 | 408 | 8.5E-10 |
| 17 | g5855.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 641 | - |
| 18 | g5855.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 642 | 663 | - |
| 16 | g5855.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 664 | 849 | - |
| 37 | g5855.t1 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 8 | 121 | 8.484 |
| 36 | g5855.t1 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 126 | 225 | 9.755 |
| 35 | g5855.t1 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 232 | 324 | 8.738 |
| 39 | g5855.t1 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 328 | 415 | 11.515 |
| 38 | g5855.t1 | ProSiteProfiles | PS50835 | Ig-like domain profile. | 426 | 513 | 7.577 |
| 27 | g5855.t1 | SMART | SM00409 | IG_3c | 13 | 123 | 2.8E-6 |
| 30 | g5855.t1 | SMART | SM00408 | igc2_5 | 19 | 111 | 0.069 |
| 25 | g5855.t1 | SMART | SM00409 | IG_3c | 142 | 229 | 27.0 |
| 29 | g5855.t1 | SMART | SM00408 | igc2_5 | 148 | 216 | 0.084 |
| 26 | g5855.t1 | SMART | SM00409 | IG_3c | 239 | 326 | 6.9 |
| 32 | g5855.t1 | SMART | SM00408 | igc2_5 | 245 | 312 | 1.4 |
| 24 | g5855.t1 | SMART | SM00409 | IG_3c | 339 | 423 | 0.0012 |
| 31 | g5855.t1 | SMART | SM00408 | igc2_5 | 345 | 411 | 1.0E-4 |
| 23 | g5855.t1 | SMART | SM00409 | IG_3c | 433 | 519 | 29.0 |
| 28 | g5855.t1 | SMART | SM00408 | igc2_5 | 439 | 508 | 1.1 |
| 10 | g5855.t1 | SUPERFAMILY | SSF48726 | Immunoglobulin | 15 | 131 | 3.2E-11 |
| 7 | g5855.t1 | SUPERFAMILY | SSF48726 | Immunoglobulin | 143 | 232 | 6.66E-13 |
| 9 | g5855.t1 | SUPERFAMILY | SSF48726 | Immunoglobulin | 243 | 329 | 1.53E-12 |
| 8 | g5855.t1 | SUPERFAMILY | SSF48726 | Immunoglobulin | 344 | 428 | 1.1E-14 |
| 6 | g5855.t1 | SUPERFAMILY | SSF48726 | Immunoglobulin | 442 | 522 | 4.99E-9 |
| 22 | g5855.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.
Data is missing for g5855/g5855.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5855.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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