General information for g9723.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as NEDD8-conjugating enzyme Ubc12.
Parent gene
- The parent gene g9723 is located on chr_1: 4799394..4800249 (- 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 | g9723 | g9723.t10 | isoform | g9723.t10 | 4798828 | 4800249 |
| chr_1 | g9723 | g9723.t10 | exon | g9723.t10.exon1 | 4798828 | 4799540 |
| chr_1 | g9723 | g9723.t10 | TTS | g9723.t10 | 4798855 | 4798855 |
| chr_1 | g9723 | g9723.t10 | cds | g9723.t10.CDS1 | 4799394 | 4799540 |
| chr_1 | g9723 | g9723.t10 | exon | g9723.t10.exon2 | 4799601 | 4799689 |
| chr_1 | g9723 | g9723.t10 | cds | g9723.t10.CDS2 | 4799601 | 4799689 |
| chr_1 | g9723 | g9723.t10 | exon | g9723.t10.exon3 | 4799753 | 4799831 |
| chr_1 | g9723 | g9723.t10 | cds | g9723.t10.CDS3 | 4799753 | 4799831 |
| chr_1 | g9723 | g9723.t10 | exon | g9723.t10.exon4 | 4799900 | 4800015 |
| chr_1 | g9723 | g9723.t10 | cds | g9723.t10.CDS4 | 4799900 | 4800015 |
| chr_1 | g9723 | g9723.t10 | exon | g9723.t10.exon5 | 4800150 | 4800249 |
| chr_1 | g9723 | g9723.t10 | cds | g9723.t10.CDS5 | 4800150 | 4800249 |
| chr_1 | g9723 | g9723.t10 | TSS | g9723.t10 | 4800324 | 4800324 |
Sequences
>g9723.t10 Gene=g9723 Length=1097
ATGATAAAACTCTTTTCTCTAAAACAACAGAAAAAGGAAGGTGAGAGTGGTAATCAACAA
AAATCAACAAGAACTGCCGCCCAGCTGCGAATTACAAAAGTTCCGCGTACATGTACAACA
AATTTTCCAGATCCAAATGATTTGTTAAACTTTAAAATGATTATATGCCCTGACGAGGGA
TATTATAGAGGTGGTCGCTTTGTTTTTAACTTTAAGGTTGGCCCAAATTATCCCCATGAA
CCTCCAAAAGTAAAATGTGAAACAAAAGTGTATCATCCAAATATTGATTTAGAAGGAAAT
GTTTGTTTAAATATATTACGTGAGGACTGGAAACCTGTTTTAACAATTAACTCGATCGTT
TATGGATTACAATATCTCTTCTTGGAACCCAATGCTGAAGATCCGTTAAATAAAGAAGCT
GCAGATGTGTTGCAGAACAATCGTCGTCTTTTTGAGCATAATGTTACAAAAGCAATGCGT
GGAGCATATATTGGTGACGTTTATTTTGATCGCTGTCTCAACTCAAACTGATATTCTAAC
ACCACCGTCAGCATAAACTCAAAAACTTTTTTCATCATTAACTGTTTTATTATTTTATTA
ATCGGTGGCTCGTATATAAAACTTATTATTTAAGATGAAAGTTTCCGTGAACTTACTTTT
TTAGAAAATTAAAAACACTGATTTTTTGATCTACCTATTTGCCTAACTAGTAAATTTCAT
TTCTTTTCTGTCATTTTTATAGAAATGTAACTTGTATCCAACTCATAAATATTAAGAGAA
ATTATAAAATTTCTTTTTGAATATTTATGTCAATTTCTGTTTTACTTACACTAAGAACAT
AATATGATACAATGCTGATGATCTTGTCCAAACGTACACCTTCTTTGATAAAAAAAATAC
TAATCCTTCTCAAAAAACTTCTTTTTTTCTCTTTTCAAAATGCATATATTTTTTAAAAAA
ATCCCTTTACTATTAAAAGCTCGTGTTATGTCATAATAAAACTAATATTAAAAAGATGGA
AATGATAAAAAAATCAAGCTAAATAAAATATTTAAAATGAAAATTCTCTGAAAAAAAAAT
CATTTGAAATAGTTTCT
>g9723.t10 Gene=g9723 Length=176
MIKLFSLKQQKKEGESGNQQKSTRTAAQLRITKVPRTCTTNFPDPNDLLNFKMIICPDEG
YYRGGRFVFNFKVGPNYPHEPPKVKCETKVYHPNIDLEGNVCLNILREDWKPVLTINSIV
YGLQYLFLEPNAEDPLNKEAADVLQNNRRLFEHNVTKAMRGAYIGDVYFDRCLNSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9723.t10 | CDD | cd00195 | UBCc | 30 | 155 | 7.81911E-39 |
| 5 | g9723.t10 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 16 | 174 | 3.0E-58 |
| 2 | g9723.t10 | PANTHER | PTHR24068:SF382 | NEDD8-CONJUGATING ENZYME UBC12-LIKE-RELATED | 28 | 162 | 1.2E-56 |
| 3 | g9723.t10 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 28 | 162 | 1.2E-56 |
| 1 | g9723.t10 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 33 | 157 | 4.2E-39 |
| 7 | g9723.t10 | ProSitePatterns | PS00183 | Ubiquitin-conjugating enzymes active site. | 91 | 106 | - |
| 9 | g9723.t10 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 53 | 153 | 28.401 |
| 8 | g9723.t10 | SMART | SM00212 | ubc_7 | 22 | 164 | 2.2E-37 |
| 4 | g9723.t10 | SUPERFAMILY | SSF54495 | UBC-like | 13 | 171 | 3.63E-49 |
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 transcript has been annotated with K10579 (ubiquitin-conjugating enzyme E2 M)
Pathway
- This transcript belongs to the following 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.
