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.t12 TSS g2515.t12 18401902 18401902
chr_3 g2515 g2515.t12 isoform g2515.t12 18402013 18405234
chr_3 g2515 g2515.t12 exon g2515.t12.exon1 18402013 18402036
chr_3 g2515 g2515.t12 exon g2515.t12.exon2 18403238 18403546
chr_3 g2515 g2515.t12 cds g2515.t12.CDS1 18403418 18403546
chr_3 g2515 g2515.t12 exon g2515.t12.exon3 18404522 18404705
chr_3 g2515 g2515.t12 cds g2515.t12.CDS2 18404522 18404705
chr_3 g2515 g2515.t12 exon g2515.t12.exon4 18404772 18405234
chr_3 g2515 g2515.t12 cds g2515.t12.CDS3 18404772 18404911
chr_3 g2515 g2515.t12 TTS g2515.t12 18405229 18405229

Sequences

>g2515.t12 Gene=g2515 Length=980
ATGGCTTTAAAAAGAATAAATAAGGAATTACAAGATTTGGGTAGAGATCCACCAGCGCAA
TGCTCAGCAGGTCCTGTTGGAGATGACCGTAAGTTGCTAATTTAATTTTCAAATAAAAAA
AACTATCTTATCGTCAACATCTCTCTATACATATGCAAAACAGAGAAAGAAACAACATTC
ACAATTCATTTCTATTTTATATAGATGGTTTTTCTTTCGAATCTTGTGAGGTGTAACGAT
TTCATTTCATTATTTCCTGCTAATGCTCTTTCACTAATTTATTCTCTACCTTTCATTACA
GTTTTTCATTGGCAAGCAACAATTATGGGACCTCCAGACAGTCCGTATCAGGGAGGCGTT
TTCTTCTTAACAATACATTTCCCAACAGATTATCCATTCAAACCACCCAAAGTGGCTTTT
ACAACTCGCATATATCACCCAAACATCAATAGTAATGGGTCGATCTGTCTCGACATTTTA
AGATCTCAATGGTCACCTGCACTAACGATTTCAAAAGTGTTGTTATCAATTTGCTCTCTT
CTCTGTGATCCTAATCCGGATGATCCACTAGTACCAGAAATCGCTAGAATATATAAAACG
GATCGCGAAAAATATAATGAACTGGCCCGTGAGTGGACTCGAAAGTATGCTATGTGATGC
GTTCCAGATGAGAAATTGTACCGTCAAAATTTAATTCTTGCTGTATTATAAACAAAAAAC
ACACAGGCTCCACCAAAACAGCGCATCCTTTGATTTTTCTGTTCGTTGCTTCAAAACAAT
TTTTTAATTTCAATTTTCATCTTTTGTCTATCTCATCTCTGTCGCCAGTCTTATTAAGAA
GGATTGTAAAGAATATTGATGATAATAACCTTTTTTGTAAAAAAACAAAAAATCAGTTTA
GTGCGAAAGTGGGAAAAGCTTCACCTCTATATGATATATTTGAAGAAGAACTAAGAGAAA
TAAAACTAAAAAAAAATGCA

>g2515.t12 Gene=g2515 Length=150
MVFLSNLVRCNDFISLFPANALSLIYSLPFITVFHWQATIMGPPDSPYQGGVFFLTIHFP
TDYPFKPPKVAFTTRIYHPNINSNGSICLDILRSQWSPALTISKVLLSICSLLCDPNPDD
PLVPEIARIYKTDREKYNELAREWTRKYAM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2515.t12 CDD cd00195 UBCc 34 145 2.53742E-62
5 g2515.t12 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 26 150 1.7E-62
2 g2515.t12 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 33 150 6.3E-77
3 g2515.t12 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 33 150 6.3E-77
1 g2515.t12 Pfam PF00179 Ubiquitin-conjugating enzyme 32 144 4.1E-48
8 g2515.t12 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 77 92 -
10 g2515.t12 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 33 139 42.324
9 g2515.t12 SMART SM00212 ubc_7 7 150 1.4E-62
4 g2515.t12 SUPERFAMILY SSF54495 UBC-like 33 150 9.57E-56
7 g2515.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -

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