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_3 g4083 g4083.t4 isoform g4083.t4 30501686 30502223
chr_3 g4083 g4083.t4 exon g4083.t4.exon1 30501686 30502223
chr_3 g4083 g4083.t4 cds g4083.t4.CDS1 30501686 30502210
chr_3 g4083 g4083.t4 TSS g4083.t4 30502687 30502687
chr_3 g4083 g4083.t4 TTS g4083.t4 NA NA

Sequences

>g4083.t4 Gene=g4083 Length=538
AGGTTGGGAATCAATGAAGATAGAAGAAAACTTGAAATGTCCAGAACTAAATGACTCAGG
ATATGCATCAGACGAGAACATGAAATTGGATATTGAAATAAACGAAAAAGAAAGTATACC
TTTGTGTATGAATAAAAAAGAAACAGTTTATGAAGCTCTGATGAAAGCATCGTCTATAAG
ACAGATTGAATACGAAGAATATGATTTGTTTTATAATGGAAAAGCTTTATCTCTCAGTGT
TGCTCTTGGTGATGTAGGTTTGACACAAAACAGTCGCTTGCGATTGGTTCAACGACCATA
TCCTGTTTTCGTTCGTATTGGAGGACGTAGTGAAACTTATGAGGTTCGTTCTTCTGACAC
AGTCGGACAATTGAAGGAAAAAATAAGTGACAACAAGGCAATACCTGCATTTTCTCAACG
TTTGTTGTATGAAAGTCGAGAATTAGACAATTCTTGGACTATAGAATATTCCAAAATTCG
CAAAAATGCAATATTGGATCTTGCTCAACGCTTATATGGAGGCGGACATTCATCTTAA

>g4083.t4 Gene=g4083 Length=174
MKIEENLKCPELNDSGYASDENMKLDIEINEKESIPLCMNKKETVYEALMKASSIRQIEY
EEYDLFYNGKALSLSVALGDVGLTQNSRLRLVQRPYPVFVRIGGRSETYEVRSSDTVGQL
KEKISDNKAIPAFSQRLLYESRELDNSWTIEYSKIRKNAILDLAQRLYGGGHSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4083.t4 CDD cd17039 Ubl_ubiquitin_like 27 92 0.0002851
13 g4083.t4 CDD cd17039 Ubl_ubiquitin_like 98 163 0.0000000
11 g4083.t4 Gene3D G3DSA:3.10.20.90 - 16 96 0.0000011
10 g4083.t4 Gene3D G3DSA:3.10.20.90 - 97 170 0.0000000
3 g4083.t4 PANTHER PTHR10666 UBIQUITIN 50 167 0.0000000
4 g4083.t4 PANTHER PTHR10666:SF352 POLYUBIQUITIN-B 50 167 0.0000000
5 g4083.t4 PRINTS PR00348 Ubiquitin signature 105 125 0.0000001
7 g4083.t4 PRINTS PR00348 Ubiquitin signature 126 146 0.0000001
6 g4083.t4 PRINTS PR00348 Ubiquitin signature 147 168 0.0000001
1 g4083.t4 Pfam PF00240 Ubiquitin family 31 95 0.0000073
2 g4083.t4 Pfam PF00240 Ubiquitin family 98 166 0.0000000
16 g4083.t4 ProSiteProfiles PS50053 Ubiquitin domain profile. 23 94 10.4620000
17 g4083.t4 ProSiteProfiles PS50053 Ubiquitin domain profile. 96 170 16.7340000
14 g4083.t4 SMART SM00213 ubq_7 23 94 14.0000000
15 g4083.t4 SMART SM00213 ubq_7 96 166 0.0000000
9 g4083.t4 SUPERFAMILY SSF54236 Ubiquitin-like 15 94 0.0000003
8 g4083.t4 SUPERFAMILY SSF54236 Ubiquitin-like 95 171 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