General information for g10975.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10975 is located on chr_1: 13106554..13109925 (+ 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 | g10975 | g10975.t17 | isoform | g10975.t17 | 13105147 | 13109925 |
| chr_1 | g10975 | g10975.t17 | exon | g10975.t17.exon1 | 13105147 | 13105304 |
| chr_1 | g10975 | g10975.t17 | cds | g10975.t17.CDS1 | 13105175 | 13105304 |
| chr_1 | g10975 | g10975.t17 | exon | g10975.t17.exon2 | 13108655 | 13108791 |
| chr_1 | g10975 | g10975.t17 | cds | g10975.t17.CDS2 | 13108655 | 13108791 |
| chr_1 | g10975 | g10975.t17 | exon | g10975.t17.exon3 | 13108847 | 13108977 |
| chr_1 | g10975 | g10975.t17 | cds | g10975.t17.CDS3 | 13108847 | 13108891 |
| chr_1 | g10975 | g10975.t17 | exon | g10975.t17.exon4 | 13109865 | 13109925 |
| chr_1 | g10975 | g10975.t17 | TTS | g10975.t17 | 13110867 | 13110867 |
| chr_1 | g10975 | g10975.t17 | TSS | g10975.t17 | NA | NA |
Sequences
>g10975.t17 Gene=g10975 Length=487
AAATCGTGTTGAAGTAATAATTGATTACATGGATAATTCAATAATCACATGGCTTTTGAC
TCTTGTTTGTGCTCCTCATTTGATCAAAAATCCATATCTTACTGCCAAATTGATTGAAGT
ACTTTTTGTCATATGTCCATCAATTCAATCAACAACAACAATTTTCTTACTGTCTGTTGT
ACCAAAGCCCAAAGTTTCTGAAACTTTATTGAGAGTGTCCTCATTCCAGTTTTGCAAAAC
CATAATGCCAGATGTCATAAACAATGCAGTTCCAACCAATGAAAAGAAGAGATCTGATTC
TCTTATCAATTGGAGCACTCATGAGATGTGCACCAAGTAAGCCAAGGAGAATGATGGTAT
AGCCAATAAATGTTCCATTAATAATCATTACGGCATTATGATTGAGAATTTCACCTGAGT
AAATGTATAATAAATTTTCATTTACCAATTCGAAAAATTTGAAGATAGATAATTTGTTGT
ATGCCAT
>g10975.t17 Gene=g10975 Length=103
MDNSIITWLLTLVCAPHLIKNPYLTAKLIEVLFVICPSIQSTTTIFLLSVVPKPKVSETL
LRVSSFQFCKTIMPDVINNAVPTNEKKRSDSLINWSTHEMCTK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g10975.t17 | Pfam | PF10408 | Ubiquitin elongating factor core | 3 | 47 | 2.2e-06 |
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:0034450 | ubiquitin-ubiquitin ligase activity | MF |
| GO:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0000151 | ubiquitin ligase complex | CC |
| GO:0016567 | protein ubiquitination | BP |
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.
