General information for g11423.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ubiquitin-conjugating enzyme E2 H.
Parent gene
- The parent gene g11423 is located on chr_1: 16152230..16155422 (- 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 | g11423 | g11423.t17 | isoform | g11423.t17 | 16150736 | 16152817 |
| chr_1 | g11423 | g11423.t17 | exon | g11423.t17.exon1 | 16150736 | 16151967 |
| chr_1 | g11423 | g11423.t17 | TTS | g11423.t17 | 16150742 | 16150742 |
| chr_1 | g11423 | g11423.t17 | cds | g11423.t17.CDS1 | 16151846 | 16151967 |
| chr_1 | g11423 | g11423.t17 | exon | g11423.t17.exon2 | 16152043 | 16152228 |
| chr_1 | g11423 | g11423.t17 | cds | g11423.t17.CDS2 | 16152043 | 16152228 |
| chr_1 | g11423 | g11423.t17 | exon | g11423.t17.exon3 | 16152293 | 16152406 |
| chr_1 | g11423 | g11423.t17 | cds | g11423.t17.CDS3 | 16152293 | 16152406 |
| chr_1 | g11423 | g11423.t17 | exon | g11423.t17.exon4 | 16152514 | 16152748 |
| chr_1 | g11423 | g11423.t17 | cds | g11423.t17.CDS4 | 16152514 | 16152643 |
| chr_1 | g11423 | g11423.t17 | exon | g11423.t17.exon5 | 16152806 | 16152817 |
| chr_1 | g11423 | g11423.t17 | TSS | g11423.t17 | 16152844 | 16152844 |
Sequences
>g11423.t17 Gene=g11423 Length=1779
AAGGTAATTTTGTTTTAGCAAAATAAAACTCATTGGAAGTGAAATCGCTAAAAGCTGGAA
GTCATTGAAATCAATAGATTTTCTTAATTTCAAAGAAAGAAGGAAAAGAGTGACAAAATG
TCAAGTCCAAGTCAAGGAAAACGACGTATGGACACAGATGTTATCAAACTCATAGAAAGC
AAACATGAAGTGACATTATTAGGATCAAATCTCAACGAATTCTGTGTAAAATTTTACGGA
CCAAGAGGAACTGCTTATGAGTCAGGCGTCTGGAAAGTTCGAGTTCATCTTCCAGAACAC
TATCCTTTTAAATCGCCAAGCATTGGATTTATGAATAAAATTTTCCATCCAAATATCGAT
GAAGTATCAGGTACTGTTTGTTTAGACGTGATAAATCAAGCATGGACAGCACTCTATGAC
CTTTCAAATATTTTCGAATCATTTCTTCCACAACTTCTCACATACCCGAATCCTATTGAT
CCTCTTAATGGTGATGCTGCTGCAATGTACCTACATAAACCTGAAGAATACAAGAAAAAA
GTCACAGATTACGTCAAACGTTTTGCAACGGAGGAAGCACTCAGAGAAACAGAGAAGGAT
GAACAAAGTTCTGATGAAAGCAGTATGAGCGATTTCAGTGAAGATGAAACTAAAGATATG
GAATTATAACGATCAATTTTTGTTTTGGTTTGAATAGATTTTTTTTGATATAGAGTTATA
TCAAGAGGGAGACGTTCATTCTAAATTCAAATTTGAATTGCCTTTTTAGATATCTGAATA
TTTAGGTTTTAAAATCACGTCTGTTTAGAACTATTTAAATAATAGTTTGCATTTATCAAA
ACAGTATATAAATTTAATATTTACAAAGTTAAAATTTAATGATGAGAAAATTTTAAGTCC
AAAAAATCCCGTCTTTCCTTTTCTCTATTATAAGAGTCGATTCTTATTATAAAAAAAACT
AAGCACATCTTTAAAATTTTTATTTTTTCGGATTTTTGTTTTAATTTTTGTTTAACTAAC
CTATAATTTTTTTGCAAGATACGTTAGAAAGGGATTTTTCAATACTAAAGATTTTTAACA
AAATATTGGAAGTTTTTGATTATTTTTAAATTTTAAAAAGTTCAATATTTTTTTCTGATA
TTTTATATCCTCTTATAATACATAAAAAAGGTTAGTTCTGCTTTTTTTCAACTTATTGAT
CATTCAAAAATTTAAAATATTATAATATATTACTTATTATACCTAAATATATATAGTGTT
TTGAAAAAATCCACTCTTGAGAAAAATATTAATATTATAAGTAATTTATAAGTTTTATTA
TTTCATAAATAGGAGTAGAAGAAGAAAGTTTTTTATTATTTTTTAATTTTAAATTCATAT
TCGAGGCACAATGAATGAATTTTAAAAAATATCTTTGAAAAGTGATTTGATTTTTTGAAA
TGGCATGCAATTTGTCCACTACAAATATAAAGCGGACATATATTGAACATTCTCTAATAA
TAAAAGAGTAATATATTAACAATTTGACTGTTTTAACCAAATTAAAATTCATCTAATATT
AAAATATTTTTAAGAGTGACAAAATCAAGGAAAAAAATCAATATATTTCCGTTTTATAAG
ATGTAGTATTTAAAATAAAGTTTGATTCAGGTATCTAATTGGGCAATAATAGAATTAATA
TTGAATGTTTCCCCCTTGATATTTATAATCATCTCGTCAATGTAAACAAGCTGTTAAAAT
AAATTTATCGTATTTCTCGTCTGAATTTGAGACAAAAAT
>g11423.t17 Gene=g11423 Length=183
MSSPSQGKRRMDTDVIKLIESKHEVTLLGSNLNEFCVKFYGPRGTAYESGVWKVRVHLPE
HYPFKSPSIGFMNKIFHPNIDEVSGTVCLDVINQAWTALYDLSNIFESFLPQLLTYPNPI
DPLNGDAAAMYLHKPEEYKKKVTDYVKRFATEEALRETEKDEQSSDESSMSDFSEDETKD
MEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11423.t17 | CDD | cd00195 | UBCc | 9 | 146 | 3.67587E-50 |
| 5 | g11423.t17 | Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 6 | 156 | 9.4E-52 |
| 9 | g11423.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 153 | 183 | - |
| 2 | g11423.t17 | PANTHER | PTHR24068:SF128 | UBIQUITIN-CONJUGATING ENZYME E2 H | 7 | 180 | 7.3E-74 |
| 3 | g11423.t17 | PANTHER | PTHR24068 | UBIQUITIN-CONJUGATING ENZYME E2 | 7 | 180 | 7.3E-74 |
| 1 | g11423.t17 | Pfam | PF00179 | Ubiquitin-conjugating enzyme | 24 | 145 | 6.6E-37 |
| 7 | g11423.t17 | ProSitePatterns | PS00183 | Ubiquitin-conjugating enzymes active site. | 76 | 92 | - |
| 10 | g11423.t17 | ProSiteProfiles | PS50127 | Ubiquitin-conjugating enzymes family profile. | 30 | 140 | 32.08 |
| 8 | g11423.t17 | SMART | SM00212 | ubc_7 | 5 | 151 | 5.1E-49 |
| 4 | g11423.t17 | SUPERFAMILY | SSF54495 | UBC-like | 7 | 152 | 7.3E-45 |
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 K10576 (ubiquitin-conjugating enzyme E2 H)
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.
