General information for g9941.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9941 is located on chr_1: 6122938..6124740 (+ 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 | g9941 | g9941.t2 | isoform | g9941.t2 | 6122144 | 6123046 |
| chr_1 | g9941 | g9941.t2 | exon | g9941.t2.exon1 | 6122144 | 6123046 |
| chr_1 | g9941 | g9941.t2 | cds | g9941.t2.CDS1 | 6122246 | 6122938 |
| chr_1 | g9941 | g9941.t2 | TSS | g9941.t2 | NA | NA |
| chr_1 | g9941 | g9941.t2 | TTS | g9941.t2 | NA | NA |
Sequences
>g9941.t2 Gene=g9941 Length=903
GCTAATTCATCAGCATCAGATCAATCATTTGATACGCAATCTGATGTCAGTTTTAACACA
ACTGCAAATAGCATTAGTACAACCGCAACTAGCGTGAGCACTATGCAGCGAGTGCCTTCT
GTTGCATCAATTCGATCTAACGTGCTTAAAGAAAGAAAGACATCTATAGAATTTATCAAA
AATTTTGCTGTTCAGCAACTTAAGAAATTGGATAACTTTCTTGATGGCTATACATTTTAT
TTAAAAGATTATCCGGAAGAAATTTTTGCAAAAATGCGACGAATAATAACTAGATGTGGT
GGATCAAGCGTGGATAATTTAAATCAGAGATTTACTCATGTCTTGTGCTATGGTGATGTG
AATTTGAAGAACCTTTCTAAGATGCTGTATGAGAAAGATAATTGTGCTGTCCCTGTTCGT
GCTGAGTGGTTAGTTGATTGTTTAACAAAAATGGAACCATTACAAGAAACAGATTATATT
ATTGATTTAAGCGCTTATGAAGTCAAACGAGTGCCATCATCACCTTTCACAAAGAAAACA
TTAAGTATGCTTAGAATAATTGCACAACAAAAGAAAGATGAAGAAAATACTATGATGATG
CCACCGCCATCAAAAATAGAAACTTCAAGCACCACAGATGAACGTGTTGTAGAATTTAAG
CAAACTTTAATTGAAACTAATCATAAAAAAGTTAAACAACCACTGACAAACACTGTAAAG
GGAAAACGATCAAGTGAAGAAGATATTAGTGTCTTGTATAATAACAAAAGACGAAAACTT
TTTGAGTCAAGTTAACTTACATTACATATAGGCATTAATTACGTGAGACATCATGTAGAA
TTGATAGAAAAATTAAATTTATGAATAAATATTTTTTTTTGCTATTTAAATAGGTAATTT
TAT
>g9941.t2 Gene=g9941 Length=230
MQRVPSVASIRSNVLKERKTSIEFIKNFAVQQLKKLDNFLDGYTFYLKDYPEEIFAKMRR
IITRCGGSSVDNLNQRFTHVLCYGDVNLKNLSKMLYEKDNCAVPVRAEWLVDCLTKMEPL
QETDYIIDLSAYEVKRVPSSPFTKKTLSMLRIIAQQKKDEENTMMMPPPSKIETSSTTDE
RVVEFKQTLIETNHKKVKQPLTNTVKGKRSSEEDISVLYNNKRRKLFESS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9941.t2 | Gene3D | G3DSA:3.40.50.10190 | - | 16 | 130 | 0.0000000 |
| 1 | g9941.t2 | Pfam | PF16589 | BRCT domain, a BRCA1 C-terminus domain | 39 | 125 | 0.0000001 |
| 4 | g9941.t2 | ProSiteProfiles | PS50172 | BRCT domain profile. | 35 | 127 | 14.6190000 |
| 2 | g9941.t2 | SUPERFAMILY | SSF52113 | BRCT domain | 30 | 128 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
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.
