Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative E3 ubiquitin-protein ligase hyd.

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 g11643 g11643.t4 isoform g11643.t4 17600636 17601456
chr_1 g11643 g11643.t4 exon g11643.t4.exon1 17600636 17601456
chr_1 g11643 g11643.t4 cds g11643.t4.CDS1 17600637 17601194
chr_1 g11643 g11643.t4 TSS g11643.t4 NA NA
chr_1 g11643 g11643.t4 TTS g11643.t4 NA NA

Sequences

>g11643.t4 Gene=g11643 Length=821
TGTTGATGCAGTGAAATACTTTTTACAACAGCTCAATGGTGAACTCAAGTCACAAATACA
AGCAGTGGTTCAAGAATTTACTGATGGAAATCGCAACATTTTACATGCCTGTATTACACA
ATGCTCACCAACGTCAAATAAAGATTCAGATCAAGATCTTCTGTCGACTGCAAATTCAAA
TAATAATCCTGGTTTGGAGTGTATCAATACTATAACAAATACAATAATTGCATCGCGTAC
AACTAGCAATATACGAGATCTAATGAGAAGATCATCATCTACATCAGCTTTGGCCGGTGA
AGTTCATCATTTATCAGCCTCTAATGTCTCTGTAACGTCAGCTGATGATAACTCAGTTAA
TTTGTCATACTGGCAGACCGAATATGATGGAAATTCAGGTGATGAAGATAGTCTCAGTGG
TATTCATATTCCAAAAGCACAGCAACAAAATCAGCCGACTGAAATTTACATTTCTGATCC
CACTGAACGAAGAGTTAATGCCCTTCTGAGTGTTCAATTGATTTGTGAAAATGCTGCATT
GCAACCCTATTTAAGACAATTATTGAGTGCAAAAGATGCAACAGGTCAAACGCCATTTAT
GCTTGCTGTCTCTAGCCGCGCTTATCAGGCCGGAATTGTTCTTTTTGATACAATTCTTAA
AATTGCAAATGGTGATCCTCAAATTAGAGATTCAATGGTATTTCCAAATGGTTCACCCGA
TCAGTCTCCTCTTCATGTTCTATGTTGCAATGACACTTGTTCGTTTACATGGACTGGTGC
TGATCATATTAATCAAGATATTTTTGAATGTCAAACATGCG

>g11643.t4 Gene=g11643 Length=186
MRRSSSTSALAGEVHHLSASNVSVTSADDNSVNLSYWQTEYDGNSGDEDSLSGIHIPKAQ
QQNQPTEIYISDPTERRVNALLSVQLICENAALQPYLRQLLSAKDATGQTPFMLAVSSRA
YQAGIVLFDTILKIANGDPQIRDSMVFPNGSPDQSPLHVLCCNDTCSFTWTGADHINQDI
FECQTC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
g11643.t4 PANTHER PTHR46276 E3 UBIQUITIN-PROTEIN LIGASE UBR5 4 186 0

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. There were no conditions that were differentially expressed