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.t25 TSS g2515.t25 18402860 18402860
chr_3 g2515 g2515.t25 isoform g2515.t25 18403133 18404911
chr_3 g2515 g2515.t25 exon g2515.t25.exon1 18403133 18403301
chr_3 g2515 g2515.t25 exon g2515.t25.exon2 18403515 18403546
chr_3 g2515 g2515.t25 cds g2515.t25.CDS1 18403538 18403546
chr_3 g2515 g2515.t25 exon g2515.t25.exon3 18404522 18404911
chr_3 g2515 g2515.t25 cds g2515.t25.CDS2 18404522 18404911
chr_3 g2515 g2515.t25 TTS g2515.t25 18405229 18405229

Sequences

>g2515.t25 Gene=g2515 Length=591
TTTCAATGTGATTAAATTTTATGCAATATAAGTACAATTTACGAAAAAAAATATCAGGAA
ATGATTCATAATGATTTTTTTCACCTTGTGTCTCTCTATTTTTAGGAATTACAAGATTTG
GGTAGAGATCCACCAGCGCAATGCTCAGCAGGTCCTGTTGGAGATGACCTTTTTCATTGG
CAAGCAACAATTATGGGACCTCCAGACAGTCCGTATCAGGGAGGCGTTTTCTTCTTAACA
ATACATTTCCCAACAGATTATCCATTCAAACCACCCAAAGTGGCTTTTACAACTCGCATA
TATCACCCAAACATCAATAGTAATGGGTCGATCTGTCTCGACATTTTAAGATCTCAATGG
TCACCTGCACTAACGATTTCAAAAGGTAAGTTGACATCATCTTGTTTAAATTTATTTTAT
TTCATTATTTTTTCATTATTCTCAATTCTAGTGTTGTTATCAATTTGCTCTCTTCTCTGT
GATCCTAATCCGGATGATCCACTAGTACCAGAAATCGCTAGAATATATAAAACGGATCGC
GAAAAATATAATGAACTGGCCCGTGAGTGGACTCGAAAGTATGCTATGTGA

>g2515.t25 Gene=g2515 Length=132
MGPPDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNINSNGSICLDILRSQWSPAL
TISKGKLTSSCLNLFYFIIFSLFSILVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYN
ELAREWTRKYAM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g2515.t25 CDD cd00195 UBCc 1 127 1.54872E-52
8 g2515.t25 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 1 132 9.9E-54
4 g2515.t25 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 1 69 5.0E-65
6 g2515.t25 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 1 69 5.0E-65
3 g2515.t25 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 70 132 5.0E-65
5 g2515.t25 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 70 132 5.0E-65
2 g2515.t25 Pfam PF00179 Ubiquitin-conjugating enzyme 1 64 1.2E-28
1 g2515.t25 Pfam PF00179 Ubiquitin-conjugating enzyme 87 126 1.5E-7
9 g2515.t25 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 73 -
11 g2515.t25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 96 -
10 g2515.t25 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 97 132 -
14 g2515.t25 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 37 52 -
16 g2515.t25 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 1 121 35.918
15 g2515.t25 SMART SM00212 ubc_7 1 132 3.2E-35
7 g2515.t25 SUPERFAMILY SSF54495 UBC-like 2 132 5.76E-44
13 g2515.t25 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 96 -

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