Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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_4 g17217 g17217.t22 TTS g17217.t22 12850741 12850741
chr_4 g17217 g17217.t22 isoform g17217.t22 12850854 12854621
chr_4 g17217 g17217.t22 exon g17217.t22.exon1 12850854 12851538
chr_4 g17217 g17217.t22 cds g17217.t22.CDS1 12850854 12851375
chr_4 g17217 g17217.t22 exon g17217.t22.exon2 12854016 12854089
chr_4 g17217 g17217.t22 exon g17217.t22.exon3 12854153 12854230
chr_4 g17217 g17217.t22 exon g17217.t22.exon4 12854616 12854621
chr_4 g17217 g17217.t22 TSS g17217.t22 NA NA

Sequences

>g17217.t22 Gene=g17217 Length=843
TCTTAGTATGAAGAAAAAGAAGAAGTTGATCCGAAACAATCAACAATAAATTGAATAACA
AATTTTAAAGAAAAGAAAAATTTGTGTGACGAGTTATTACCAAGTACATCAATAATCCAG
TTCAAAAGAAAAGTTCACAAAAAATAGACGCTCAGTATAAAAATTTTCAGAGAAAATAAT
AATGATGTTAAAACAACTGTTGATGAAGATATTGTTACGGAAGAGCAAAATGACTCAGGC
ATTGGCACTGATGCATCTTCAGTGTCTTCTGACGCGAGCTACCAAACTGTTTTGAGCAAC
ACTTCTATTTCTTTAGATTCGATGAATATAAATAGCTCAGAAGAAGATGAAAAGAATGCT
GATGCACAACTGGATTTTGCTCTAGAAGACACTCTTGAATTAATAATTGAACGAGATGAT
AAAGAAATTCCATTAAACATGGACAAAACTGCGACAATTTCTGATGTTCTTAATCAAGCA
TCTTTAATTGGAAATTTTACAAGTGATGATTTTGATTTGTCAATTGATAGCAAAACTTTA
CCACGAACAATCAGTCTTCGTGATGCAGCCATCACTTATGGAAGTCGCATTCGTTTAGTT
GAGCGTCCATTTCAAATTTTTATTCGTCGTGTTGATGGTCGCATTTTGACTTTGGATGTC
ACTTCCTCAAACACTATTGAATATTTGAAAGAACGATTCAATTACACTGATCAAGTTCCA
ATTCATCAACAAAGATTGTTGTATCAAAGTCAAGAATTGGAAAATTCACGTACTTTGCAA
TTTTATAAAATTCGCAAAAATGCAACACTTGAAATGGTCTACAGACTTCGTGGTGGATTT
TAA

>g17217.t22 Gene=g17217 Length=173
MNINSSEEDEKNADAQLDFALEDTLELIIERDDKEIPLNMDKTATISDVLNQASLIGNFT
SDDFDLSIDSKTLPRTISLRDAAITYGSRIRLVERPFQIFIRRVDGRILTLDVTSSNTIE
YLKERFNYTDQVPIHQQRLLYQSQELENSRTLQFYKIRKNATLEMVYRLRGGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g17217.t22 Gene3D G3DSA:3.10.20.90 - 94 173 0.0000000
3 g17217.t22 PANTHER PTHR10666 UBIQUITIN 32 141 0.0000000
5 g17217.t22 PANTHER PTHR10666:SF336 POLYUBIQUITIN-LIKE 32 141 0.0000000
2 g17217.t22 PANTHER PTHR10666 UBIQUITIN 97 172 0.0000000
4 g17217.t22 PANTHER PTHR10666:SF336 POLYUBIQUITIN-LIKE 97 172 0.0000000
6 g17217.t22 PRINTS PR00348 Ubiquitin signature 107 127 0.0000000
7 g17217.t22 PRINTS PR00348 Ubiquitin signature 128 148 0.0000000
8 g17217.t22 PRINTS PR00348 Ubiquitin signature 149 170 0.0000000
1 g17217.t22 Pfam PF00240 Ubiquitin family 99 170 0.0000000
14 g17217.t22 ProSiteProfiles PS50053 Ubiquitin domain profile. 97 172 19.7820000
11 g17217.t22 SMART SM00213 ubq_7 25 95 18.0000000
12 g17217.t22 SMART SM00213 ubq_7 97 168 0.0000000
9 g17217.t22 SUPERFAMILY SSF54236 Ubiquitin-like 32 95 0.0000052
10 g17217.t22 SUPERFAMILY SSF54236 Ubiquitin-like 95 172 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0005515 protein binding MF

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