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.t11 TTS g17217.t11 12850741 12850741
chr_4 g17217 g17217.t11 isoform g17217.t11 12850854 12851772
chr_4 g17217 g17217.t11 exon g17217.t11.exon1 12850854 12851281
chr_4 g17217 g17217.t11 cds g17217.t11.CDS1 12850854 12851258
chr_4 g17217 g17217.t11 exon g17217.t11.exon2 12851436 12851526
chr_4 g17217 g17217.t11 exon g17217.t11.exon3 12851581 12851653
chr_4 g17217 g17217.t11 exon g17217.t11.exon4 12851716 12851772
chr_4 g17217 g17217.t11 TSS g17217.t11 12851771 12851771

Sequences

>g17217.t11 Gene=g17217 Length=649
AATTGAACTGGAATAATCGACAAATAAATTGAGTGACAAATTTTTTAAAAAAATTTGCAG
AGTGACGAATAAACCAAATAAAAGTAAAAGAATTTTACTTTGAAGAAAATTTCACAAAAA
TGGACGCTCAAGAAAATAATAATGATGTTAAAACAACTGTTGATGAAGATATTGTTACGG
AAGAGCAAAATGACTCAGGCATTGGCACTGATGCATCTTCAATGATAAAGAAATTCCATT
AAACATGGACAAAACTGCGACAATTTCTGATGTTCTTAATCAAGCATCTTTAATTGGAAA
TTTTACAAGTGATGATTTTGATTTGTCAATTGATAGCAAAACTTTACCACGAACAATCAG
TCTTCGTGATGCAGCCATCACTTATGGAAGTCGCATTCGTTTAGTTGAGCGTCCATTTCA
AATTTTTATTCGTCGTGTTGATGGTCGCATTTTGACTTTGGATGTCACTTCCTCAAACAC
TATTGAATATTTGAAAGAACGATTCAATTACACTGATCAAGTTCCAATTCATCAACAAAG
ATTGTTGTATCAAAGTCAAGAATTGGAAAATTCACGTACTTTGCAATTTTATAAAATTCG
CAAAAATGCAACACTTGAAATGGTCTACAGACTTCGTGGTGGATTTTAA

>g17217.t11 Gene=g17217 Length=134
MDKTATISDVLNQASLIGNFTSDDFDLSIDSKTLPRTISLRDAAITYGSRIRLVERPFQI
FIRRVDGRILTLDVTSSNTIEYLKERFNYTDQVPIHQQRLLYQSQELENSRTLQFYKIRK
NATLEMVYRLRGGF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17217.t11 Gene3D G3DSA:3.10.20.90 - 57 134 0.0000000
2 g17217.t11 PANTHER PTHR10666 UBIQUITIN 58 133 0.0000000
3 g17217.t11 PANTHER PTHR10666:SF254 UBIQUITIN-40S RIBOSOMAL PROTEIN S31 58 133 0.0000000
6 g17217.t11 PRINTS PR00348 Ubiquitin signature 68 88 0.0000000
5 g17217.t11 PRINTS PR00348 Ubiquitin signature 89 109 0.0000000
4 g17217.t11 PRINTS PR00348 Ubiquitin signature 110 131 0.0000000
1 g17217.t11 Pfam PF00240 Ubiquitin family 60 131 0.0000000
11 g17217.t11 ProSiteProfiles PS50053 Ubiquitin domain profile. 58 133 19.7820000
9 g17217.t11 SMART SM00213 ubq_7 58 129 0.0000000
8 g17217.t11 SUPERFAMILY SSF54236 Ubiquitin-like 4 56 0.0000178
7 g17217.t11 SUPERFAMILY SSF54236 Ubiquitin-like 55 133 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. There were no conditions that were differentially expressed