General information for g12289.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g12289.t1 | 22178342 | 22178342 |
| chr_1 | g12289 | g12289.t1 | isoform | g12289.t1 | 22178859 | 22179787 |
| chr_1 | g12289 | g12289.t1 | exon | g12289.t1.exon1 | 22178859 | 22179091 |
| chr_1 | g12289 | g12289.t1 | cds | g12289.t1.CDS1 | 22178859 | 22179091 |
| chr_1 | g12289 | g12289.t1 | exon | g12289.t1.exon2 | 22179151 | 22179428 |
| chr_1 | g12289 | g12289.t1 | cds | g12289.t1.CDS2 | 22179151 | 22179428 |
| chr_1 | g12289 | g12289.t1 | exon | g12289.t1.exon3 | 22179487 | 22179581 |
| chr_1 | g12289 | g12289.t1 | cds | g12289.t1.CDS3 | 22179487 | 22179581 |
| chr_1 | g12289 | g12289.t1 | exon | g12289.t1.exon4 | 22179779 | 22179787 |
| chr_1 | g12289 | g12289.t1 | cds | g12289.t1.CDS4 | 22179779 | 22179787 |
| chr_1 | g12289 | g12289.t1 | TSS | g12289.t1 | 22179870 | 22179870 |
Sequences
>g12289.t1 Gene=g12289 Length=615
ATGAGTTCGATGTCAAATTTAGAAAACCACAATCCTCAAGTAATTAGGCAAATTTCAAAA
GAAGTGAAAACATTATCATCGGAGAATTTGGAGGGAATTAAAGTAACTATAAATGAAGCA
GACCTTACTGATATACAAGCTATAATAGATGGTCCAGCTGGAACTCCATATTCGTCAGGA
CAATTTCGAGTTAAATTAACACTTCCAAAAGATTTTCCTCAAAGCCCTCCGAAAGCGTTT
TTCATGACGAAAATATTTCATCCGAATGTAGCAAATAATGGAGAAATTTGTGTAAACACA
CTTAAAAAAGATTGGAAACCTGACTTAGGAATTAAACATATACTTTTAACAATAAAATGT
CTCTTGATTGTACCTAATCCAGAATCTGCACTGAACGAGGAAGCAGGAAAAATGCTTTTA
GAGCACTATGATGATTATTCACAAAGAGCAAAATTAATGACTGAAATTCATGCGAGACCT
TCCACAAGTAAAGATGTAGACGTTGATGAGGATGGATGTAGTTCAAGTAAAAAATTGGCA
TCTGATAAGAAAATTCAGGATAAAAAGAAAGAAAAACTCATGAAAGAGAAAAAGAGAATT
TTAAAACGTCTCTGA
>g12289.t1 Gene=g12289 Length=204
MSSMSNLENHNPQVIRQISKEVKTLSSENLEGIKVTINEADLTDIQAIIDGPAGTPYSSG
QFRVKLTLPKDFPQSPPKAFFMTKIFHPNVANNGEICVNTLKKDWKPDLGIKHILLTIKC
LLIVPNPESALNEEAGKMLLEHYDDYSQRAKLMTEIHARPSTSKDVDVDEDGCSSSKKLA
SDKKIQDKKKEKLMKEKKRILKRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12289.t1 | CDD | cd00195 | UBCc | 15 | 154 | 3.07442E-47 |
| 5 | g12289.t1 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 2 | 158 | 5.2E-56 |
| 9 | g12289.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 158 | 194 | - |
| 10 | g12289.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 158 | 204 | - |
| 2 | g12289.t1 | PANTHER | PTHR24068:SF328 | - | 11 | 161 | 2.3E-65 |
| 3 | g12289.t1 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 11 | 161 | 2.3E-65 |
| 1 | g12289.t1 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 18 | 152 | 3.0E-38 |
| 7 | g12289.t1 | ProSitePatterns | PS00183 | Ubiquitin-conjugating enzymes active site. | 86 | 101 | - |
| 11 | g12289.t1 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 16 | 148 | 32.424 |
| 8 | g12289.t1 | SMART | SM00212 | ubc_7 | 16 | 159 | 1.5E-42 |
| 4 | g12289.t1 | SUPERFAMILY | SSF54495 | UBC-like | 5 | 159 | 4.27E-48 |
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 K10583 (ubiquitin-conjugating enzyme E2 S)
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.
