General information for g3376.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3376 is located on chr_3: 24965665..24967852 (- 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_3 | g3376 | g3376.t3 | TTS | g3376.t3 | 24962028 | 24962028 |
| chr_3 | g3376 | g3376.t3 | isoform | g3376.t3 | 24962131 | 24964293 |
| chr_3 | g3376 | g3376.t3 | exon | g3376.t3.exon1 | 24962131 | 24962620 |
| chr_3 | g3376 | g3376.t3 | cds | g3376.t3.CDS1 | 24962478 | 24962620 |
| chr_3 | g3376 | g3376.t3 | exon | g3376.t3.exon2 | 24962686 | 24964293 |
| chr_3 | g3376 | g3376.t3 | cds | g3376.t3.CDS2 | 24962686 | 24963736 |
| chr_3 | g3376 | g3376.t3 | TSS | g3376.t3 | NA | NA |
Sequences
>g3376.t3 Gene=g3376 Length=2098
TGTTAATGATGCAATCAATTATTTAATTAAAAAAAGTTGAAAATAAAATATCAAAAATTT
AAATTTTTTTTGTTTCAAAAGTTGCGTTCAAGAATTAATCCACACAAAAAAACATTGCAT
CAAAACATCATTTTTGTGGATTATAAGTGTGCGAAAGTAAAGTGTGTTTTCAGTCAAAAG
CAAGTTAAAGAAAAAGTTTTAATATTTATAGGATATTACTATAAATTAACTGTTTTTAAA
TGTGATTAACTAACCAACACAATTAGCTAAATTTGTCGTGAATTAATTCATGACAGTGTA
GCTTAATATTTATTGGATAATTTAAAGTTGAAGAATTAAGCACGTGGAGAATATAAAAAA
TACAGGTTGATTCCGATTATGAGATAATTAAGCTCGATCCAAATGTTATTTATGAAACAG
ATGATGATGAGGATTTATTGAAAGAAGAGGAATATGTTGAGAAACAAAGATCTGCTAAAA
ATTGTGAAAATGCGGCCGAATTTGTTTTCATCGACGAAATCAACAAAACAAAAAATGAGG
AAGAAGATAATAAACAAATGGTAGATGATATCATTGATAAAAAGTCAAGTGCAGAATCAA
ACGACTTGCCTAATGAGGTAATTATAGAGCAAAAACCTCGTAAAAAACTGAATTTAGCGG
AATATAAAATTGTGCGTGCTAATAGACCTGCACCAATTGTCGAAGAATGCGAAAAAGTTG
TGCTCGAATTATGTGAAAATATTCCTGAAACTCTTCCAATTATTGAATTGCCAACTGATC
CTCGAAGCATTAAAGCTCTTCTTTCTGCTCAAAATCAGCAGCCGCAACCTCAATCAATAT
CTCAACCTGAACCAATGCAAATTGATAAAGCTTTAAATATGAAAGAAGAAGAAAAAGTTC
CAAAAGAAGTAGATCCAGATTATGAAGAAATTGTTTTAATATCAATGGAATGCAATACAG
ATATATCAATTTCACCACAAGAGAATGATGAGCAATTGGAAACAAAAGCTCCAGCCAAAT
TTCTTACAAATATCGTCAATACTATTAAGAAAGACGAATACGCAAAAACTTTGCTTAGTT
CTTCAACGACTCTCTTTTCTAGTATTAATGCAGTAGTTCATGAAAAGTGTAATTCGTTGA
ATGAAGCAACTATTGAAAATAGCAGTAGTCGCAAGAACTCAGAACATGGTGAGAACAAAA
TTATAATGCATTTGCGAAAAGATCGGATACGACCTAAATGCTCAAGTTTTGCTATGCAAA
CAGAAAATTCTCCACTCTTTCCACCGCTTTTATTGTCACCTGATATTATTTTCAATCGTA
TCAAAAATGTAAGAAATTTCCGAAGAAAATCACGAACTCGTAGTAGAAGCCGATCAAGAA
GTAGAAGTTTTAGTCCAGAAAATGATTATTATAAACGTAGCAATTATAAATATTCACGTT
CATTACACTCTTCTACTGTGAATAGTAGCGAATTTGATTCATCAGAAAGTGACAGTTCTG
CCTATAGCTCATGTCGTTCATCAGATTACGATTCAATTAGAAAATTCGATAATAGAATAT
CAGGGCAAAGATATCGTAATCATAGATCATCTAATTATACTTACGAAGAGGAAAGAAAAG
TCGTTTATATTGGTGGGTTAACTGAAGATGTAACAAAAGAGGATTTACGTCGAAATTTTT
TAAAATATGGAACGATAAAAAAGATTTCTATTCATGCAAAGCAAGATGTTAATGGGTATG
TCAAGATTTAAAAAATTATAACTGCTGAGTTGTTACTTAAAAAAAATTTCTCTGTTTTAG
TAATTTACGTTTTGGTTTCATTACATTTGCTGAAGCTTCAGCTGCCTATGATGTTCTTGA
TAAATTTAAACTAGATTCGTCATTGTGTGATTATGACATTCGTTTTGGAGGGAGAAGAAG
GTTTTGCAAACAGTCTTATGCTGATTTGGATTCTTTGCCTAAAGAAGATGACATTGATGA
TGTATATAATAACAACAATATTAATATTAACAACACGATGAAATCCAAAAAAGCTGCCGA
ATTAAGTTTTGAGGAACTTTTAAATATTGCCCGTCAAAAAATGTGCAGAAATAACTAA
>g3376.t3 Gene=g3376 Length=397
MVDDIIDKKSSAESNDLPNEVIIEQKPRKKLNLAEYKIVRANRPAPIVEECEKVVLELCE
NIPETLPIIELPTDPRSIKALLSAQNQQPQPQSISQPEPMQIDKALNMKEEEKVPKEVDP
DYEEIVLISMECNTDISISPQENDEQLETKAPAKFLTNIVNTIKKDEYAKTLLSSSTTLF
SSINAVVHEKCNSLNEATIENSSSRKNSEHGENKIIMHLRKDRIRPKCSSFAMQTENSPL
FPPLLLSPDIIFNRIKNVRNFRRKSRTRSRSRSRSRSFSPENDYYKRSNYKYSRSLHSST
VNSSEFDSSESDSSAYSSCRSSDYDSIRKFDNRISGQRYRNHRSSNYTYEEERKVVYIGG
LTEDVTKEDLRRNFLKYGTIKKISIHAKQDVNGYVKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g3376.t3 | Gene3D | G3DSA:3.30.70.330 | - | 323 | 396 | 0.0000003 |
| 1 | g3376.t3 | Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 356 | 388 | 0.0000081 |
| 4 | g3376.t3 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 354 | 397 | 9.5070000 |
| 2 | g3376.t3 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 302 | 390 | 0.0000000 |
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:0003676 | nucleic acid binding | MF |
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.
