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_1 g10176 g10176.t4 TSS g10176.t4 8077086 8077086
chr_1 g10176 g10176.t4 isoform g10176.t4 8077317 8079745
chr_1 g10176 g10176.t4 exon g10176.t4.exon1 8077317 8077360
chr_1 g10176 g10176.t4 exon g10176.t4.exon2 8078569 8078822
chr_1 g10176 g10176.t4 cds g10176.t4.CDS1 8078592 8078822
chr_1 g10176 g10176.t4 exon g10176.t4.exon3 8078887 8079745
chr_1 g10176 g10176.t4 cds g10176.t4.CDS2 8078887 8079012
chr_1 g10176 g10176.t4 TTS g10176.t4 NA NA

Sequences

>g10176.t4 Gene=g10176 Length=1157
ATGTCAACTCCAGCTAGAAGACGATTAATGCGAGATTTCAAAAGGTGCGCCAACCGATAA
TAACATAATGATATGGAATGCTGTGATTTTTGGTCCGCATGATACACCCTTTGAAGATGG
AACTTTCAAATTGACGATAGAATTCACTGAAGAATATCCAAATAAACCACCAACAGTTCG
TTTTGTGTCGAAAATGTTTCATCCAAATGTTTATGCTGATGGTGGCATTTGCTTGGATAT
CTTACAAAACAGATGGAGTCCAACTTATGACGTATCTGCCATATTAACATCTATACAGTC
ACTTCTGAGTGATCCCAATCCAAACTCACCTGCTAATGCTATGGCAGCTCAGTTGTATAA
AGAAAATCGTCGGGAATATGAGAAACGGGTCAAGGCATGTGTGGAACAAAGCTTCATTGA
TTAGATTCACGCTTATTAAAGATTTGAAATCAAAAAATTTTAATCTAAGATCTTCGATTG
ACTTTTTGTCTCTACTTACTATTTTTCTCTCCCTTTATGTAAAATATCCTGTTATTTATA
TAACAGTAACATACATTTTTTAAAGCATACAAAAAAAGTAGTTTGATGAAGATCGTTTCT
ACGTCAAAAAATTTAATTTTAATTTAAAAATTTAGAATTTTAATTTTATTTTCTGTTTGA
TTTTTTTCTTTGCTTTCAAAAGCAAATCTGGCTTTATCAAAATGAATGTAATAGCTATAA
CGTACATAGATTTTTGTTTTATTAGCCCACCACGTCTTAACTTTGTTCATGTGTCCTGTT
TTTTTCTGTACCAAAAAAATGTGTAAATCATAAGATAAATAAAATTTGAAAAAAGAAATC
CTATTAGAAAAGATTAAATCTTTAAAGAAAAAAATTATAATTGATTGATGTCGTATCTGT
AATTAAATCAGAAAAAAATAGTACACAAACAAACATAAATGTTGAAACATGAAATAGTGT
TTATTAAACTTAAATACATATTCACAAATTATATTGAGAGAAAGAAAAAAGTCATCAGGA
TTCCTCTTTTTCTTTACTATATCGAACTAACGAGATAATTTTTTTGATGGAGAAAATTGT
AATAAAATTGTGAAACACAAAAGAAAATAAAAGTGAATTAGGATAACATACAAAATAAAA
AAAAACTCTTGAAAAAT

>g10176.t4 Gene=g10176 Length=118
MIWNAVIFGPHDTPFEDGTFKLTIEFTEEYPNKPPTVRFVSKMFHPNVYADGGICLDILQ
NRWSPTYDVSAILTSIQSLLSDPNPNSPANAMAAQLYKENRREYEKRVKACVEQSFID

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10176.t4 CDD cd00195 UBCc 1 112 1.11778E-62
6 g10176.t4 Coils Coil Coil 94 114 -
5 g10176.t4 Gene3D G3DSA:3.10.110.10 Ubiquitin Conjugating Enzyme 1 118 5.3E-56
2 g10176.t4 PANTHER PTHR24067 UBIQUITIN-CONJUGATING ENZYME E2 1 118 2.4E-70
3 g10176.t4 PANTHER PTHR24067:SF243 UBIQUITIN-CONJUGATING ENZYME E2 A 1 118 2.4E-70
1 g10176.t4 Pfam PF00179 Ubiquitin-conjugating enzyme 2 111 1.0E-47
8 g10176.t4 ProSitePatterns PS00183 Ubiquitin-conjugating enzymes active site. 44 59 -
10 g10176.t4 ProSiteProfiles PS50127 Ubiquitin-conjugating enzymes family profile. 1 106 40.564
9 g10176.t4 SMART SM00212 ubc_7 1 117 2.1E-51
4 g10176.t4 SUPERFAMILY SSF54495 UBC-like 1 116 4.59E-51

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. There were no conditions that were differentially expressed