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.t23 TSS g2515.t23 18402860 18402860
chr_3 g2515 g2515.t23 isoform g2515.t23 18402980 18405234
chr_3 g2515 g2515.t23 exon g2515.t23.exon1 18402980 18403128
chr_3 g2515 g2515.t23 cds g2515.t23.CDS1 18403039 18403128
chr_3 g2515 g2515.t23 exon g2515.t23.exon2 18403238 18403301
chr_3 g2515 g2515.t23 cds g2515.t23.CDS2 18403238 18403301
chr_3 g2515 g2515.t23 exon g2515.t23.exon3 18403515 18403546
chr_3 g2515 g2515.t23 cds g2515.t23.CDS3 18403515 18403546
chr_3 g2515 g2515.t23 exon g2515.t23.exon4 18404522 18404705
chr_3 g2515 g2515.t23 cds g2515.t23.CDS4 18404522 18404705
chr_3 g2515 g2515.t23 exon g2515.t23.exon5 18404772 18405234
chr_3 g2515 g2515.t23 cds g2515.t23.CDS5 18404772 18404911
chr_3 g2515 g2515.t23 TTS g2515.t23 18405229 18405229

Sequences

>g2515.t23 Gene=g2515 Length=892
TGTAAAAAGATTACAACGAAAACGATGAGTTTGGCGTTAATTTTACTACTCTTAAGCACA
TGCTTTTTAGTTTTTTTTATTTCACAAAAACATTTAATTCATTTCTTCATAAACGAAGAC
GCAGAAAAAATTACTTCTTGCTTTTTTTAGAATTACAAGATTTGGGTAGAGATCCACCAG
CGCAATGCTCAGCAGGTCCTGTTGGAGATGACCTTTTTCATTGGCAAGCAACAATTATGG
GACCTCCAGACAGTCCGTATCAGGGAGGCGTTTTCTTCTTAACAATACATTTCCCAACAG
ATTATCCATTCAAACCACCCAAAGTGGCTTTTACAACTCGCATATATCACCCAAACATCA
ATAGTAATGGGTCGATCTGTCTCGACATTTTAAGATCTCAATGGTCACCTGCACTAACGA
TTTCAAAAGTGTTGTTATCAATTTGCTCTCTTCTCTGTGATCCTAATCCGGATGATCCAC
TAGTACCAGAAATCGCTAGAATATATAAAACGGATCGCGAAAAATATAATGAACTGGCCC
GTGAGTGGACTCGAAAGTATGCTATGTGATGCGTTCCAGATGAGAAATTGTACCGTCAAA
ATTTAATTCTTGCTGTATTATAAACAAAAAACACACAGGCTCCACCAAAACAGCGCATCC
TTTGATTTTTCTGTTCGTTGCTTCAAAACAATTTTTTAATTTCAATTTTCATCTTTTGTC
TATCTCATCTCTGTCGCCAGTCTTATTAAGAAGGATTGTAAAGAATATTGATGATAATAA
CCTTTTTTGTAAAAAAACAAAAAATCAGTTTAGTGCGAAAGTGGGAAAAGCTTCACCTCT
ATATGATATATTTGAAGAAGAACTAAGAGAAATAAAACTAAAAAAAAATGCA

>g2515.t23 Gene=g2515 Length=169
MLFSFFYFTKTFNSFLHKRRRRKNYFLLFLELQDLGRDPPAQCSAGPVGDDLFHWQATIM
GPPDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNINSNGSICLDILRSQWSPALT
ISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNELAREWTRKYAM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2515.t23 CDD cd00195 UBCc 31 164 2.00584E-72
5 g2515.t23 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 27 169 2.6E-71
2 g2515.t23 PANTHER PTHR24068:SF48 UBIQUITIN-CONJUGATING ENZYME E2 D3 29 169 5.2E-92
3 g2515.t23 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 29 169 5.2E-92
1 g2515.t23 Pfam PF00179 Ubiquitin-conjugating enzyme 30 163 6.9E-52
7 g2515.t23 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 96 111 -
9 g2515.t23 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 26 158 46.705
8 g2515.t23 SMART SM00212 ubc_7 26 169 3.6E-74
4 g2515.t23 SUPERFAMILY SSF54495 UBC-like 24 169 1.1E-63

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

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.

Raw TPM values