Gene loci information

Transcript annotation

  • This transcript has been annotated as Ubiquitin-conjugating enzyme E2-24 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_2 g6402 g6402.t1 TTS g6402.t1 16868058 16868058
chr_2 g6402 g6402.t1 isoform g6402.t1 16868316 16869160
chr_2 g6402 g6402.t1 exon g6402.t1.exon1 16868316 16868328
chr_2 g6402 g6402.t1 cds g6402.t1.CDS1 16868316 16868328
chr_2 g6402 g6402.t1 exon g6402.t1.exon2 16868386 16868470
chr_2 g6402 g6402.t1 cds g6402.t1.CDS2 16868386 16868470
chr_2 g6402 g6402.t1 exon g6402.t1.exon3 16868537 16868684
chr_2 g6402 g6402.t1 cds g6402.t1.CDS3 16868537 16868684
chr_2 g6402 g6402.t1 exon g6402.t1.exon4 16868747 16868820
chr_2 g6402 g6402.t1 cds g6402.t1.CDS4 16868747 16868820
chr_2 g6402 g6402.t1 exon g6402.t1.exon5 16868878 16869160
chr_2 g6402 g6402.t1 cds g6402.t1.CDS5 16868878 16869160
chr_2 g6402 g6402.t1 TSS g6402.t1 16869268 16869268

Sequences

>g6402.t1 Gene=g6402 Length=603
ATGTCAACTACATCAGCAGGAAGTGGTGGTGGCTCAAGTGGAGCAGGTGGAAGTCGTCGA
AATGGTGGGAGTAGTGCAGGTAATAGTTCAAGTTCTACAGAACCAAAACCTGAGACAAAG
GAAACAAAATCGAATCCAAAAATATCAAAAGCTTTGGGAACATCGGCAAAACGTATGCAA
AAAGAACTTGCCGAAATCACTCTCGATCCTCCACCAAATTGCTCAGCCGGTCCAAAAGGT
GATAATTTGTATGAATGGGTTTCTACAATTCTTGGACCTCCAGGTTCTGTTTATGAAGGA
GGAGTGTTCTTTTTGGATATACATTTCCCACCAGAATATCCTTTTAAACCTCCAAAAGTT
TTATTTAGAACTAGAATATATCATTGCAATATAAATAGTCAAGGCGTCATTTGTTTGGAT
ATTTTAAAAGATAACTGGTCACCCGCACTGACAATTTCAAAAGTTTTACTATCAATTTGT
TCTTTGTTAACAGACTGTAATCCAGCTGATCCGCTTGTTGGAAGCATTGCTACACAATAT
TTACAAAATAGAGAGGAACATGATCGAATCGCACGCCTTTGGACTAAACGATATGCTACG
TGA

>g6402.t1 Gene=g6402 Length=200
MSTTSAGSGGGSSGAGGSRRNGGSSAGNSSSSTEPKPETKETKSNPKISKALGTSAKRMQ
KELAEITLDPPPNCSAGPKGDNLYEWVSTILGPPGSVYEGGVFFLDIHFPPEYPFKPPKV
LFRTRIYHCNINSQGVICLDILKDNWSPALTISKVLLSICSLLTDCNPADPLVGSIATQY
LQNREEHDRIARLWTKRYAT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g6402.t1 CDD cd00195 UBCc 57 195 6.87208E-69
5 g6402.t1 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 28 200 1.5E-73
9 g6402.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 51 -
10 g6402.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 35 -
2 g6402.t1 PANTHER PTHR24068:SF62 UBIQUITIN-CONJUGATING ENZYME E2 E2 30 199 2.1E-100
3 g6402.t1 PANTHER PTHR24068 UBIQUITIN-CONJUGATING ENZYME E2 30 199 2.1E-100
1 g6402.t1 Pfam PF00179 Ubiquitin-conjugating enzyme 58 193 7.1E-47
7 g6402.t1 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 127 142 -
11 g6402.t1 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 57 189 42.112
8 g6402.t1 SMART SM00212 ubc_7 57 200 2.1E-72
4 g6402.t1 SUPERFAMILY SSF54495 UBC-like 45 199 9.44E-61

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