General information for g9372.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9372 is located on chr_1: 2290620..2291380 (+ 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 | g9372 | g9372.t4 | isoform | g9372.t4 | 2290620 | 2291380 |
| chr_1 | g9372 | g9372.t4 | exon | g9372.t4.exon1 | 2290620 | 2291380 |
| chr_1 | g9372 | g9372.t4 | cds | g9372.t4.CDS1 | 2290649 | 2291380 |
| chr_1 | g9372 | g9372.t4 | TTS | g9372.t4 | 2291443 | 2291443 |
| chr_1 | g9372 | g9372.t4 | TSS | g9372.t4 | NA | NA |
Sequences
>g9372.t4 Gene=g9372 Length=761
GAATTACTGAAGCATTTACACAAGATACAATGCAAAATCCTTATCATCAAAATGTATGCA
AATCAGTTGCTTATCGTGCACTTAATCCTACTGAACCTCTGCCACCGATCGACAAAGACT
TGTTGAAATTGATTGATACACCAGAGAAAATCAAACAACGTATTGAAAGTTTTATTATAC
AATTTGAAGATTTCTTTCCAAGAGAAATTATACAACGCAAAGATAGAAAGAAACCACTTG
GTCAATTACAAAAGGATGGTGATACTGCTATTGATGATACTGAAATTTATGATCATTTGT
CATCTGAAAGAACTATAGTTGCCATTGGAACAGTAACACCAGCCGAAGATTTTCTTTATT
TGCTTAAAAAAGGCGAACGTTTCAGTGTTTTGTGTGAACAAATGCAATCAATTATTTATG
AATACATTTTCAAAAGTATGACAAAGTTTGAAGATATGGCTGATAAGATAAAGGAAACCA
TCTTGGCATTTCGTGAGGCAGCAACTATTCATGCACCTTTAAATTACAATAAATGGATTG
CTGAATTGAAGGCTATGATGACCAAACGAAATAAAATTGATGAATGGAACTTACTTATCG
TAAAAGAAGGCTTAGGTCTAATTTCACAAAATGAATCGCCTATGTCGACAATTGCACTCG
ATGAACAAGTTGCATTTTATGAAATTATTTCAAAAAATTCATCACGCAATTTCACATCAA
TTGCTTTAGAAGAAGAAGACGATCTTGCTGCATTATTGTAA
>g9372.t4 Gene=g9372 Length=243
MQNPYHQNVCKSVAYRALNPTEPLPPIDKDLLKLIDTPEKIKQRIESFIIQFEDFFPREI
IQRKDRKKPLGQLQKDGDTAIDDTEIYDHLSSERTIVAIGTVTPAEDFLYLLKKGERFSV
LCEQMQSIIYEYIFKSMTKFEDMADKIKETILAFREAATIHAPLNYNKWIAELKAMMTKR
NKIDEWNLLIVKEGLGLISQNESPMSTIALDEQVAFYEIISKNSSRNFTSIALEEEDDLA
ALL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9372.t4 | Gene3D | G3DSA:1.10.1600.10 | - | 1 | 64 | 0.00e+00 |
| 5 | g9372.t4 | Gene3D | G3DSA:1.25.40.240 | - | 94 | 228 | 0.00e+00 |
| 1 | g9372.t4 | Pfam | PF08785 | Ku C terminal domain like | 103 | 217 | 0.00e+00 |
| 2 | g9372.t4 | SUPERFAMILY | SSF100939 | SPOC domain-like | 2 | 51 | 7.46e-05 |
| 3 | g9372.t4 | SUPERFAMILY | SSF101420 | C-terminal domain of Ku80 | 91 | 217 | 0.00e+00 |
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.
