General information for g3376.t5
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.t5 | TTS | g3376.t5 | 24962028 | 24962028 |
| chr_3 | g3376 | g3376.t5 | isoform | g3376.t5 | 24962131 | 24967852 |
| chr_3 | g3376 | g3376.t5 | exon | g3376.t5.exon1 | 24962131 | 24962428 |
| chr_3 | g3376 | g3376.t5 | cds | g3376.t5.CDS1 | 24962131 | 24962428 |
| chr_3 | g3376 | g3376.t5 | exon | g3376.t5.exon2 | 24962494 | 24962620 |
| chr_3 | g3376 | g3376.t5 | cds | g3376.t5.CDS2 | 24962494 | 24962620 |
| chr_3 | g3376 | g3376.t5 | exon | g3376.t5.exon3 | 24962686 | 24963824 |
| chr_3 | g3376 | g3376.t5 | cds | g3376.t5.CDS3 | 24962686 | 24963736 |
| chr_3 | g3376 | g3376.t5 | exon | g3376.t5.exon4 | 24967831 | 24967852 |
| chr_3 | g3376 | g3376.t5 | TSS | g3376.t5 | NA | NA |
Sequences
>g3376.t5 Gene=g3376 Length=1586
AATGTGTTGAAACAAAATATTTATCTGCTAAAAATTGTGAAAATGCGGCCGAATTTGTTT
TCATCGACGAAATCAACAAAACAAAAAATGAGGAAGAAGATAATAAACAAATGGTAGATG
ATATCATTGATAAAAAGTCAAGTGCAGAATCAAACGACTTGCCTAATGAGGTAATTATAG
AGCAAAAACCTCGTAAAAAACTGAATTTAGCGGAATATAAAATTGTGCGTGCTAATAGAC
CTGCACCAATTGTCGAAGAATGCGAAAAAGTTGTGCTCGAATTATGTGAAAATATTCCTG
AAACTCTTCCAATTATTGAATTGCCAACTGATCCTCGAAGCATTAAAGCTCTTCTTTCTG
CTCAAAATCAGCAGCCGCAACCTCAATCAATATCTCAACCTGAACCAATGCAAATTGATA
AAGCTTTAAATATGAAAGAAGAAGAAAAAGTTCCAAAAGAAGTAGATCCAGATTATGAAG
AAATTGTTTTAATATCAATGGAATGCAATACAGATATATCAATTTCACCACAAGAGAATG
ATGAGCAATTGGAAACAAAAGCTCCAGCCAAATTTCTTACAAATATCGTCAATACTATTA
AGAAAGACGAATACGCAAAAACTTTGCTTAGTTCTTCAACGACTCTCTTTTCTAGTATTA
ATGCAGTAGTTCATGAAAAGTGTAATTCGTTGAATGAAGCAACTATTGAAAATAGCAGTA
GTCGCAAGAACTCAGAACATGGTGAGAACAAAATTATAATGCATTTGCGAAAAGATCGGA
TACGACCTAAATGCTCAAGTTTTGCTATGCAAACAGAAAATTCTCCACTCTTTCCACCGC
TTTTATTGTCACCTGATATTATTTTCAATCGTATCAAAAATGTAAGAAATTTCCGAAGAA
AATCACGAACTCGTAGTAGAAGCCGATCAAGAAGTAGAAGTTTTAGTCCAGAAAATGATT
ATTATAAACGTAGCAATTATAAATATTCACGTTCATTACACTCTTCTACTGTGAATAGTA
GCGAATTTGATTCATCAGAAAGTGACAGTTCTGCCTATAGCTCATGTCGTTCATCAGATT
ACGATTCAATTAGAAAATTCGATAATAGAATATCAGGGCAAAGATATCGTAATCATAGAT
CATCTAATTATACTTACGAAGAGGAAAGAAAAGTCGTTTATATTGGTGGGTTAACTGAAG
ATGTAACAAAAGAGGATTTACGTCGAAATTTTTTAAAATATGGAACGATAAAAAAGATTT
CTATTCATGCAAAGCAAGATGTTAATGGTAATTTACGTTTTGGTTTCATTACATTTGCTG
AAGCTTCAGCTGCCTATGATGTTCTTGATAAATTTAAACTAGATTCGTCATTGTGTGATT
ATGACATTCGTTTTGGAGGGAGAAGAAGGTTTTGCAAACAGTCTTATGCTGATTTGGATT
CTTTGCCTAAAGAAGATGACATTGATGATGTATATAATAACAACAATATTAATATTAACA
ACACGATGAAATCCAAAAAAGCTGCCGAATTAAGTTTTGAGGAACTTTTAAATATTGCCC
GTCAAAAAATGTGCAGAAATAACTAA
>g3376.t5 Gene=g3376 Length=491
MVDDIIDKKSSAESNDLPNEVIIEQKPRKKLNLAEYKIVRANRPAPIVEECEKVVLELCE
NIPETLPIIELPTDPRSIKALLSAQNQQPQPQSISQPEPMQIDKALNMKEEEKVPKEVDP
DYEEIVLISMECNTDISISPQENDEQLETKAPAKFLTNIVNTIKKDEYAKTLLSSSTTLF
SSINAVVHEKCNSLNEATIENSSSRKNSEHGENKIIMHLRKDRIRPKCSSFAMQTENSPL
FPPLLLSPDIIFNRIKNVRNFRRKSRTRSRSRSRSRSFSPENDYYKRSNYKYSRSLHSST
VNSSEFDSSESDSSAYSSCRSSDYDSIRKFDNRISGQRYRNHRSSNYTYEEERKVVYIGG
LTEDVTKEDLRRNFLKYGTIKKISIHAKQDVNGNLRFGFITFAEASAAYDVLDKFKLDSS
LCDYDIRFGGRRRFCKQSYADLDSLPKEDDIDDVYNNNNININNTMKSKKAAELSFEELL
NIARQKMCRNN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3376.t5 | Gene3D | G3DSA:3.30.70.330 | - | 324 | 435 | 0.000 |
| 2 | g3376.t5 | PANTHER | PTHR15528 | PEROXISOME PROLIFERATOR ACTIVATED RECEPTOR GAMMA COACTIVATOR 1 PGC-1 -RELATED | 175 | 489 | 0.000 |
| 1 | g3376.t5 | Pfam | PF00076 | RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) | 356 | 414 | 0.000 |
| 6 | g3376.t5 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 354 | 432 | 12.407 |
| 4 | g3376.t5 | SMART | SM00360 | rrm1_1 | 355 | 429 | 0.000 |
| 3 | g3376.t5 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 303 | 414 | 0.000 |
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:0003712 | transcription coregulator activity | MF |
| GO:0008134 | transcription factor binding | MF |
| GO:0003676 | nucleic acid binding | MF |
KEGG
Orthology
- This transcript has been annotated with K17963 (peroxisome proliferator-activated receptor gamma coactivator-related protein 1)
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.
