General information for g9723.t1
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.t1 | TTS | g9723.t1 | 4798855 | 4798855 |
| chr_1 | g9723 | g9723.t1 | isoform | g9723.t1 | 4799394 | 4800249 |
| chr_1 | g9723 | g9723.t1 | exon | g9723.t1.exon1 | 4799394 | 4799540 |
| chr_1 | g9723 | g9723.t1 | cds | g9723.t1.CDS1 | 4799394 | 4799540 |
| chr_1 | g9723 | g9723.t1 | exon | g9723.t1.exon2 | 4799601 | 4799689 |
| chr_1 | g9723 | g9723.t1 | cds | g9723.t1.CDS2 | 4799601 | 4799689 |
| chr_1 | g9723 | g9723.t1 | exon | g9723.t1.exon3 | 4799753 | 4799831 |
| chr_1 | g9723 | g9723.t1 | cds | g9723.t1.CDS3 | 4799753 | 4799831 |
| chr_1 | g9723 | g9723.t1 | exon | g9723.t1.exon4 | 4799900 | 4800033 |
| chr_1 | g9723 | g9723.t1 | cds | g9723.t1.CDS4 | 4799900 | 4800033 |
| chr_1 | g9723 | g9723.t1 | exon | g9723.t1.exon5 | 4800150 | 4800249 |
| chr_1 | g9723 | g9723.t1 | cds | g9723.t1.CDS5 | 4800150 | 4800249 |
| chr_1 | g9723 | g9723.t1 | TSS | g9723.t1 | 4800324 | 4800324 |
Sequences
>g9723.t1 Gene=g9723 Length=549
ATGATAAAACTCTTTTCTCTAAAACAACAGAAAAAGGAAGGTGAGAGTGGTAATCAACAA
AAATCAACAAGAACTGCCGCCCAGCTGCGAATTACAAAAGACATTAATGAACTCAACCTT
CCGCGTACATGTACAACAAATTTTCCAGATCCAAATGATTTGTTAAACTTTAAAATGATT
ATATGCCCTGACGAGGGATATTATAGAGGTGGTCGCTTTGTTTTTAACTTTAAGGTTGGC
CCAAATTATCCCCATGAACCTCCAAAAGTAAAATGTGAAACAAAAGTGTATCATCCAAAT
ATTGATTTAGAAGGAAATGTTTGTTTAAATATATTACGTGAGGACTGGAAACCTGTTTTA
ACAATTAACTCGATCGTTTATGGATTACAATATCTCTTCTTGGAACCCAATGCTGAAGAT
CCGTTAAATAAAGAAGCTGCAGATGTGTTGCAGAACAATCGTCGTCTTTTTGAGCATAAT
GTTACAAAAGCAATGCGTGGAGCATATATTGGTGACGTTTATTTTGATCGCTGTCTCAAC
TCAAACTGA
>g9723.t1 Gene=g9723 Length=182
MIKLFSLKQQKKEGESGNQQKSTRTAAQLRITKDINELNLPRTCTTNFPDPNDLLNFKMI
ICPDEGYYRGGRFVFNFKVGPNYPHEPPKVKCETKVYHPNIDLEGNVCLNILREDWKPVL
TINSIVYGLQYLFLEPNAEDPLNKEAADVLQNNRRLFEHNVTKAMRGAYIGDVYFDRCLN
SN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9723.t1 | CDD | cd00195 | UBCc | 30 | 161 | 3.59124E-40 |
| 5 | g9723.t1 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 21 | 180 | 9.4E-63 |
| 2 | g9723.t1 | PANTHER | PTHR24068:SF382 | NEDD8-CONJUGATING ENZYME UBC12-LIKE-RELATED | 12 | 168 | 1.2E-61 |
| 3 | g9723.t1 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 12 | 168 | 1.2E-61 |
| 1 | g9723.t1 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 30 | 163 | 1.8E-39 |
| 7 | g9723.t1 | ProSitePatterns | PS00183 | Ubiquitin-conjugating enzymes active site. | 97 | 112 | - |
| 9 | g9723.t1 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 29 | 159 | 29.01 |
| 8 | g9723.t1 | SMART | SM00212 | ubc_7 | 29 | 170 | 3.2E-39 |
| 4 | g9723.t1 | SUPERFAMILY | SSF54495 | UBC-like | 10 | 177 | 6.31E-53 |
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.
