General information for g11601.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ADP-ribosylation factor GTPase-activating protein 2.
Parent gene
- The parent gene g11601 is located on chr_1: 17411439..17412756 (+ strand)
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.t1 | TSS | g11601.t1 | 17410433 | 17410433 |
| chr_1 | g11601 | g11601.t1 | isoform | g11601.t1 | 17410524 | 17412544 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon1 | 17410524 | 17410592 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS1 | 17410524 | 17410592 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon2 | 17410702 | 17410798 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS2 | 17410702 | 17410798 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon3 | 17410864 | 17410937 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS3 | 17410864 | 17410937 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon4 | 17411002 | 17411154 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS4 | 17411002 | 17411154 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon5 | 17411221 | 17411358 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS5 | 17411221 | 17411358 |
| chr_1 | g11601 | g11601.t1 | exon | g11601.t1.exon6 | 17411426 | 17412544 |
| chr_1 | g11601 | g11601.t1 | cds | g11601.t1.CDS6 | 17411426 | 17412544 |
| chr_1 | g11601 | g11601.t1 | TTS | g11601.t1 | 17412771 | 17412771 |
Sequences
>g11601.t1 Gene=g11601 Length=1650
ATGGATTGTCCACCTAAAGCTGATATTGATGCAATATTCAATCGTTTAAGATCATTGCCG
TATAATAAAGTTTGTTTTGATTGTAATGCAAAAAATCCAACATGGTCCTCGATAACATAT
GGTGTCTTCATTTGCTTAGATTGCTCTTCTGTCCACAGAAGCTTAGGGGTTCACTTAACA
TTTGTTCGCTCAACACAACTTGATACTAATTGGAATTGGCAACAAATAAGACAAATGCAG
GTTGGAGGTAATGCAAATGCTAGTTCCTTTTTCCGTCAACATAATTGTGTTACAACTGAT
GCCCAACAAAAATATAACTCACGTGCTGCTCAACTATATAAAGATAAATTGATCACTTTA
GCTCAACAAGCATGTAAACGACATGGAACCACTCTTCATATTAACGAACTTCATTATCAT
CATGAAGAAACTACTGAAAAGGAAAGCGACTTTTTTGAAAATTATGATAATGAAAATGTT
ACTCAAAACACAAACAATAATATTAACATGAATGTGGAAAATAATGAAATGAATAAATCA
ACAGCAAAAAAGCCTGTTTCTGTTTCTAGCAATTTGACTGAATCCAATGATAATGCTGAG
CCAAGTGTTAATTTTCTTGATTCGGTTGAAACAACAACACCGCCTAAATCATCGATTGGA
GTCAGAAAGATTCAACCAAAAAAATCGGGTATCGGTGCTAAAAAAGGACTTGGAGCGAAA
AAAGTTCAAAACTCAAATTTCGCAGATATTGAACAGCGTGCAACATTAGCGGATCAACTT
AAAGAACCTGTAATTGATAAGAAACTCACACAAGAGGAAGAAGCGGAAGCTATTTCGAGT
GTGAGGCTAGCATATCAAGACTTATCTCTTAAGAAGAGTAAAGAAGAGGAACGCCTTAAA
AATCTCGATCCCAATAAAGCAAAACAGATGGAAAGACTAGGAATGGCATTCAATGTTCGT
GGTGGAGTATCTCATTCAATCCTAACTGACATGCAAACTATCAATCAAGATCAAGCACCA
GTTAATATGAAATCTTCATCATCTAAAAATTTTGATCGTGACAATAGTTCAAGTAACGAT
ATGTTTGATGATTATTTGTACAGTCCAAATTCAAATAGCAGTAATAATAAACAAGATTTC
CAAGATGCAATGATGATGGGTTTTGAACCAATTGAGTTAAAACAAAATGTTTATACAATG
TTTTCTCCAACTGAAAAGGAGACATCTTCAAAAAATTTTATGCAAACATCGGTCGATAAA
CAGCCCTCATCATCGAGTAAAACTAATAGAAATGTTAAATCGGATACCGCAAAATCTTCA
TCTAGTAATTTTGATTCCGATTCTATACAAAAAAAATTCGCAGGCGCTAAGGGTATTTCA
TCTGATCAATTTTTTGGCAATGATGCTTCACATGAAAAATTTTCAAATCTGTCTAAGTTC
CAAGGATCGACTGCTATTTCTTCTGCTGATTATTTTGGCGATGGACAAGAATCGATTAAA
AAGACTTCTCGGTTAGAATTTCACAGTCCGGATCTTGATTTAGAAGATGTTAAGGATTCA
ATAAAAACTGGAGTTACACGGGTAGCAGGTAGACTTAGTACGCTAGCAAATAATGTTAAT
AATTTCATTCAGGACAAGTATGGTCATTAA
>g11601.t1 Gene=g11601 Length=549
MDCPPKADIDAIFNRLRSLPYNKVCFDCNAKNPTWSSITYGVFICLDCSSVHRSLGVHLT
FVRSTQLDTNWNWQQIRQMQVGGNANASSFFRQHNCVTTDAQQKYNSRAAQLYKDKLITL
AQQACKRHGTTLHINELHYHHEETTEKESDFFENYDNENVTQNTNNNINMNVENNEMNKS
TAKKPVSVSSNLTESNDNAEPSVNFLDSVETTTPPKSSIGVRKIQPKKSGIGAKKGLGAK
KVQNSNFADIEQRATLADQLKEPVIDKKLTQEEEAEAISSVRLAYQDLSLKKSKEEERLK
NLDPNKAKQMERLGMAFNVRGGVSHSILTDMQTINQDQAPVNMKSSSSKNFDRDNSSSND
MFDDYLYSPNSNSSNNKQDFQDAMMMGFEPIELKQNVYTMFSPTEKETSSKNFMQTSVDK
QPSSSSKTNRNVKSDTAKSSSSNFDSDSIQKKFAGAKGISSDQFFGNDASHEKFSNLSKF
QGSTAISSADYFGDGQESIKKTSRLEFHSPDLDLEDVKDSIKTGVTRVAGRLSTLANNVN
NFIQDKYGH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11601.t1 | CDD | cd08959 | ArfGap_ArfGap1_like | 9 | 123 | 6.20341E-74 |
| 7 | g11601.t1 | Gene3D | G3DSA:3.30.40.160 | - | 1 | 142 | 1.9E-56 |
| 10 | g11601.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 404 | 444 | - |
| 2 | g11601.t1 | PANTHER | PTHR45686 | ADP-RIBOSYLATION FACTOR GTPASE ACTIVATING PROTEIN 3, ISOFORM H-RELATED | 4 | 548 | 9.5E-127 |
| 3 | g11601.t1 | PANTHER | PTHR45686:SF10 | ADP-RIBOSYLATION FACTOR GTPASE-ACTIVATING PROTEIN 2 | 4 | 548 | 9.5E-127 |
| 4 | g11601.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 22 | 41 | 3.9E-14 |
| 5 | g11601.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 41 | 58 | 3.9E-14 |
| 1 | g11601.t1 | Pfam | PF01412 | Putative GTPase activating protein for Arf | 12 | 117 | 1.8E-31 |
| 11 | g11601.t1 | ProSiteProfiles | PS50115 | ARF GTPase-activating proteins domain profile. | 10 | 126 | 26.392 |
| 9 | g11601.t1 | SMART | SM00105 | arf_gap_3 | 10 | 126 | 3.3E-47 |
| 6 | g11601.t1 | SUPERFAMILY | SSF57863 | ArfGap/RecO-like zinc finger | 10 | 114 | 1.44E-35 |
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
- This transcript has been annotated with K12493 (ADP-ribosylation factor GTPase-activating protein 2/3)
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.
