General information for g12289.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ubiquitin-conjugating enzyme E2 S.
Parent gene
- The parent gene g12289 is located on chr_1: 22179582..22181969 (- 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 | g12289 | g12289.t4 | TTS | g12289.t4 | 22178342 | 22178342 |
| chr_1 | g12289 | g12289.t4 | isoform | g12289.t4 | 22178346 | 22179787 |
| chr_1 | g12289 | g12289.t4 | exon | g12289.t4.exon1 | 22178346 | 22179091 |
| chr_1 | g12289 | g12289.t4 | cds | g12289.t4.CDS1 | 22178859 | 22179091 |
| chr_1 | g12289 | g12289.t4 | exon | g12289.t4.exon2 | 22179151 | 22179428 |
| chr_1 | g12289 | g12289.t4 | cds | g12289.t4.CDS2 | 22179151 | 22179289 |
| chr_1 | g12289 | g12289.t4 | exon | g12289.t4.exon3 | 22179487 | 22179568 |
| chr_1 | g12289 | g12289.t4 | exon | g12289.t4.exon4 | 22179779 | 22179787 |
| chr_1 | g12289 | g12289.t4 | TSS | g12289.t4 | 22179870 | 22179870 |
Sequences
>g12289.t4 Gene=g12289 Length=1115
ATGAGTTCGAAAACCACAATCCTCAAGTAATTAGGCAAATTTCAAAAGAAGTGAAAACAT
TATCATCGGAGAATTTGGAGGGAATTAAAGTAACTATAAATGAAGCAGACCTTACTGATA
TACAAGCTATAATAGATGGTCCAGCTGGAACTCCATATTCGTCAGGACAATTTCGAGTTA
AATTAACACTTCCAAAAGATTTTCCTCAAAGCCCTCCGAAAGCGTTTTTCATGACGAAAA
TATTTCATCCGAATGTAGCAAATAATGGAGAAATTTGTGTAAACACACTTAAAAAAGATT
GGAAACCTGACTTAGGAATTAAACATATACTTTTAACAATAAAATGTCTCTTGATTGTAC
CTAATCCAGAATCTGCACTGAACGAGGAAGCAGGAAAAATGCTTTTAGAGCACTATGATG
ATTATTCACAAAGAGCAAAATTAATGACTGAAATTCATGCGAGACCTTCCACAAGTAAAG
ATGTAGACGTTGATGAGGATGGATGTAGTTCAAGTAAAAAATTGGCATCTGATAAGAAAA
TTCAGGATAAAAAGAAAGAAAAACTCATGAAAGAGAAAAAGAGAATTTTAAAACGTCTCT
GAAACAATAAAAAGGCCATTTGCAGTATCAGCCACAATATATCAAATCCACAATCAAAGG
ATCTCTAATGCAATCCAAAAAGAAGCATTCTTTCGTTAAATTCCTTTTGAGAACGCGTTC
AAATATTTTACAAATTCCTGATTTTTTCTTTATAATCAATAAATATTTCACTATTGATCA
TCACAAATTTTTGGCAAGTCAGCTTTCTTTTGAGTTTATAAAATTTCATTTGAAATGTTT
GAAAAGAATTAAATAAGGACTATCTACCTAGTTTTTAAAATGATGAGTAAGTTATTAATA
TTTCAAATTTCTTTGTGTACTTTCTATTCTTTCTTCATATCTCTTTCCTTAAATCTAATA
TGACTTGAAGATGGTGACACGTTTTAAATTCACAAATATAAAATCATCTTTTTAAAAAAA
GCAAACAAACACACATACACACACTATGATAAAATGAAATTAATCTACCTACTTAGAATA
AATTCACGCAATAAAAATTGTCATTTTTGTGAAAA
>g12289.t4 Gene=g12289 Length=123
MTKIFHPNVANNGEICVNTLKKDWKPDLGIKHILLTIKCLLIVPNPESALNEEAGKMLLE
HYDDYSQRAKLMTEIHARPSTSKDVDVDEDGCSSSKKLASDKKIQDKKKEKLMKEKKRIL
KRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g12289.t4 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 1 | 77 | 1.0E-26 |
| 6 | g12289.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 113 | - |
| 7 | g12289.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 123 | - |
| 2 | g12289.t4 | PANTHER | PTHR24068:SF328 | - | 1 | 81 | 8.7E-35 |
| 3 | g12289.t4 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 1 | 81 | 8.7E-35 |
| 1 | g12289.t4 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 2 | 71 | 1.7E-18 |
| 5 | g12289.t4 | ProSitePatterns | PS00183 | Ubiquitin-conjugating enzymes active site. | 5 | 20 | - |
| 9 | g12289.t4 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 1 | 67 | 18.21 |
| 4 | g12289.t4 | SUPERFAMILY | SSF54495 | UBC-like | 1 | 79 | 6.52E-24 |
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.
