Gene loci information

Transcript annotation

  • This transcript has been annotated as ADP-ribosylation factor GTPase-activating protein 3.

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 g11601 g11601.t5 TSS g11601.t5 17410433 17410433
chr_1 g11601 g11601.t5 isoform g11601.t5 17410524 17411355
chr_1 g11601 g11601.t5 exon g11601.t5.exon1 17410524 17410592
chr_1 g11601 g11601.t5 cds g11601.t5.CDS1 17410524 17410592
chr_1 g11601 g11601.t5 exon g11601.t5.exon2 17410702 17410798
chr_1 g11601 g11601.t5 cds g11601.t5.CDS2 17410702 17410798
chr_1 g11601 g11601.t5 exon g11601.t5.exon3 17410864 17410937
chr_1 g11601 g11601.t5 cds g11601.t5.CDS3 17410864 17410937
chr_1 g11601 g11601.t5 exon g11601.t5.exon4 17411002 17411154
chr_1 g11601 g11601.t5 cds g11601.t5.CDS4 17411002 17411154
chr_1 g11601 g11601.t5 exon g11601.t5.exon5 17411221 17411355
chr_1 g11601 g11601.t5 cds g11601.t5.CDS5 17411221 17411355
chr_1 g11601 g11601.t5 TTS g11601.t5 NA NA

Sequences

>g11601.t5 Gene=g11601 Length=528
ATGGATTGTCCACCTAAAGCTGATATTGATGCAATATTCAATCGTTTAAGATCATTGCCG
TATAATAAAGTTTGTTTTGATTGTAATGCAAAAAATCCAACATGGTCCTCGATAACATAT
GGTGTCTTCATTTGCTTAGATTGCTCTTCTGTCCACAGAAGCTTAGGGGTTCACTTAACA
TTTGTTCGCTCAACACAACTTGATACTAATTGGAATTGGCAACAAATAAGACAAATGCAG
GTTGGAGGTAATGCAAATGCTAGTTCCTTTTTCCGTCAACATAATTGTGTTACAACTGAT
GCCCAACAAAAATATAACTCACGTGCTGCTCAACTATATAAAGATAAATTGATCACTTTA
GCTCAACAAGCATGTAAACGACATGGAACCACTCTTCATATTAACGAACTTCATTATCAT
CATGAAGAAACTACTGAAAAGGAAAGCGACTTTTTTGAAAATTATGATAATGAAAATGTT
ACTCAAAACACAAACAATAATATTAACATGAATGTGGAAAATAATGAA

>g11601.t5 Gene=g11601 Length=176
MDCPPKADIDAIFNRLRSLPYNKVCFDCNAKNPTWSSITYGVFICLDCSSVHRSLGVHLT
FVRSTQLDTNWNWQQIRQMQVGGNANASSFFRQHNCVTTDAQQKYNSRAAQLYKDKLITL
AQQACKRHGTTLHINELHYHHEETTEKESDFFENYDNENVTQNTNNNINMNVENNE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11601.t5 CDD cd08959 ArfGap_ArfGap1_like 9 123 0.000
8 g11601.t5 Gene3D G3DSA:3.30.40.160 - 1 142 0.000
2 g11601.t5 PANTHER PTHR45686 ADP-RIBOSYLATION FACTOR GTPASE ACTIVATING PROTEIN 3, ISOFORM H-RELATED 2 161 0.000
3 g11601.t5 PANTHER PTHR45686:SF1 ADP-RIBOSYLATION FACTOR GTPASE-ACTIVATING PROTEIN 3 2 161 0.000
4 g11601.t5 PRINTS PR00405 HIV Rev interacting protein signature 22 41 0.000
6 g11601.t5 PRINTS PR00405 HIV Rev interacting protein signature 41 58 0.000
5 g11601.t5 PRINTS PR00405 HIV Rev interacting protein signature 63 84 0.000
1 g11601.t5 Pfam PF01412 Putative GTPase activating protein for Arf 12 117 0.000
11 g11601.t5 ProSiteProfiles PS50115 ARF GTPase-activating proteins domain profile. 10 126 26.392
10 g11601.t5 SMART SM00105 arf_gap_3 10 126 0.000
7 g11601.t5 SUPERFAMILY SSF57863 ArfGap/RecO-like zinc finger 10 115 0.000

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:0005096 GTPase activator activity MF

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.

Raw TPM values