Gene loci information

Transcript annotation

  • This transcript has been annotated as Ubiquitin-conjugating enzyme E2-17 kDa.

Parent gene

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_3 g2515 g2515.t7 TSS g2515.t7 18401902 18401902
chr_3 g2515 g2515.t7 isoform g2515.t7 18402013 18405234
chr_3 g2515 g2515.t7 exon g2515.t7.exon1 18402013 18402053
chr_3 g2515 g2515.t7 cds g2515.t7.CDS1 18402013 18402053
chr_3 g2515 g2515.t7 exon g2515.t7.exon2 18403258 18403301
chr_3 g2515 g2515.t7 cds g2515.t7.CDS2 18403258 18403301
chr_3 g2515 g2515.t7 exon g2515.t7.exon3 18404577 18404705
chr_3 g2515 g2515.t7 cds g2515.t7.CDS3 18404577 18404705
chr_3 g2515 g2515.t7 exon g2515.t7.exon4 18404772 18405234
chr_3 g2515 g2515.t7 cds g2515.t7.CDS4 18404772 18404911
chr_3 g2515 g2515.t7 TTS g2515.t7 18405229 18405229

Sequences

>g2515.t7 Gene=g2515 Length=677
ATGGCTTTAAAAAGAATAAATAAGGTAGATAGCGTAGAAATAGATCCACCAGCGCAATGC
TCAGCAGGTCCTGTTGGAGATGACCATTATCCATTCAAACCACCCAAAGTGGCTTTTACA
ACTCGCATATATCACCCAAACATCAATAGTAATGGGTCGATCTGTCTCGACATTTTAAGA
TCTCAATGGTCACCTGCACTAACGATTTCAAAAGTGTTGTTATCAATTTGCTCTCTTCTC
TGTGATCCTAATCCGGATGATCCACTAGTACCAGAAATCGCTAGAATATATAAAACGGAT
CGCGAAAAATATAATGAACTGGCCCGTGAGTGGACTCGAAAGTATGCTATGTGATGCGTT
CCAGATGAGAAATTGTACCGTCAAAATTTAATTCTTGCTGTATTATAAACAAAAAACACA
CAGGCTCCACCAAAACAGCGCATCCTTTGATTTTTCTGTTCGTTGCTTCAAAACAATTTT
TTAATTTCAATTTTCATCTTTTGTCTATCTCATCTCTGTCGCCAGTCTTATTAAGAAGGA
TTGTAAAGAATATTGATGATAATAACCTTTTTTGTAAAAAAACAAAAAATCAGTTTAGTG
CGAAAGTGGGAAAAGCTTCACCTCTATATGATATATTTGAAGAAGAACTAAGAGAAATAA
AACTAAAAAAAAATGCA

>g2515.t7 Gene=g2515 Length=117
MALKRINKVDSVEIDPPAQCSAGPVGDDHYPFKPPKVAFTTRIYHPNINSNGSICLDILR
SQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNELAREWTRKYAM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g2515.t7 CDD cd00195 UBCc 4 112 9.67246E-45
7 g2515.t7 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 27 117 6.1E-45
2 g2515.t7 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 5 29 3.6E-59
4 g2515.t7 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 5 29 3.6E-59
3 g2515.t7 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 29 117 3.6E-59
5 g2515.t7 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 29 117 3.6E-59
1 g2515.t7 Pfam PF00179 Ubiquitin-conjugating enzyme 28 111 8.8E-34
9 g2515.t7 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 44 59 -
11 g2515.t7 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 28 106 30.77
10 g2515.t7 SMART SM00212 ubc_7 3 117 2.2E-35
6 g2515.t7 SUPERFAMILY SSF54495 UBC-like 19 117 3.81E-41

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.

Raw TPM values