General information for g8284.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as ARF GTPase-activating protein GIT2.
Parent gene
- The parent gene g8284 is located on chr_2: 29548573..29551372 (- 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_2 | g8284 | g8284.t1 | TTS | g8284.t1 | 29548254 | 29548254 |
| chr_2 | g8284 | g8284.t1 | isoform | g8284.t1 | 29548573 | 29551372 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon1 | 29548573 | 29549134 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS1 | 29548573 | 29549134 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon2 | 29549196 | 29549428 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS2 | 29549196 | 29549428 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon3 | 29549935 | 29550242 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS3 | 29549935 | 29550242 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon4 | 29550296 | 29550452 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS4 | 29550296 | 29550452 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon5 | 29550510 | 29550786 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS5 | 29550510 | 29550786 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon6 | 29550851 | 29551244 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS6 | 29550851 | 29551244 |
| chr_2 | g8284 | g8284.t1 | exon | g8284.t1.exon7 | 29551318 | 29551372 |
| chr_2 | g8284 | g8284.t1 | cds | g8284.t1.CDS7 | 29551318 | 29551372 |
| chr_2 | g8284 | g8284.t1 | TSS | g8284.t1 | 29551493 | 29551493 |
Sequences
>g8284.t1 Gene=g8284 Length=1986
ATGTCAAGAGGAAAGAATCGTGGACTTGAGGTTTGTGGTGATTGTAACTCGCAAGATCCT
CCATTCGCTTCTTTAAATAAAGGAATTCTATTATGTTCAGATTGTGCTTCCGTTCATCGA
CAATTAGGCACTCATTTATCAATTGTTAAGCCTCTACGACATGGACAATGGAATCAATCG
CTCCTTTCCTTCGTTCATCAAATAAACTCACATAATGCAAATTCTGTATGGGAACATCTG
CTATTAGATCCAAATTCCAAACTTCAAAAGAAGAAGCCAACTCCAAAAGATTCAATTCAA
ACGAAATCGCAATTTATAAGAAGCAAACATGTAAATCTAGAGTTTGTGCTCAAACCCAAT
CTAAACGAAACTTCCACGAATATTGAAGTAGAGTTAAGTAAGCAACTACATGCTAGTGTA
AGATCAGCTAATCTTGAGACTTCGCTCAGATTAATAGCGCAAGGAGCAAATTGCAATTAT
ATTCATAAAGACAAAAATTGTACTACACCAATACATGTTGCCGCAAAAGCTGGTCAGAGT
GCACAATGCGAGCTTCTTCTTATTTATGGAGCAGATATTAATGCGGTTGATGGTAGTGGG
AACAATGCAATTGATCTTGCTAGACAAAATCAATTCACACAACTAGCTGATAGACTTGTC
GAAGCAAGTTATGAAGTAACTGACAGAATAATCTATTTTCTTTGCGGTCGCAAACCTGAT
CATACTAGTGGTCAACATTTAATAATACCAGAACAAACAAAAGTTGAAATAAATGAGCAC
CTAAAAATTGCACGTGGAAAACTCCAGTTAATCCCGAATAAAATGTTTGAAGAATTGGTT
ATGGATTTATATGAGGAAGTTGATAGGAGAGAAACTGAAACAATTTGGTCAACAATTTGC
TCGAATCCTGAAATAGGAGCTGTTCCTTTTCTAGTGACTAATCCACATTTATCAGCAACA
AGAAATCAAGGACGTCAAAAACTTGCAAGGTTTTCACATGCCGAGTTTTGTGGATTACTT
TCCGATATTTTAGTAGATGCGAGTCGAAGAAAGAATATAGCAAATTTAAGACCACTCGAA
CAAATGAGAGGTAATCGAGAGTCAACGAATTCAGATGATGAACCTTTATATGACGCTGTC
TGCGAAGATGATGATTATGGTCATGCATCACTTCCATCAATGTCTCAACAGAATGCAACA
AACAATTCACTTCCTTCAACTTCAACTGGTACAATTGTATCATCACAAACAAATGTTGCA
ACAGCTGCTGACAATAATAGCGAATTGGAACAATTAAGGAAACAGCTGAAAAATTCTGAA
TTAACAATAACAGAATTAAAGGCAATTGTTGAAAAATTATCATTAGAAAATTCAATATTA
AAAACTCGCATAGATTCGAGTCCAATTTCACAGGAAGTTCAATTACGCATTCATGACACT
CCTGAGAATAGTCCAACTGAACCAGAACCATCAAAACCATTGAATGTTAATTCTAAAAGA
CCAGTATCAATGTATGAAGCAAGACAAGCACCACGAGATGAAAACAGGCCACCAGTGACA
CAAAGTCTTTATTCAGTGGCCTCAAATTCATCAGGCTCTTCTTCAACAACATCACTGCCC
ATAGTTGATGAAGTTACAAAACGAACTGAGATTGTTACAAGAAGAATTCAAGAGTTGTGG
CTCGCTATGCAAGATTTAAGTTCAAAAGACAAATTTATTCCTTGTTCTGAACGAATTCGC
CTCGGTGTAACTGATTTGATTGCCATATTTCCTAAGACAGCTACAGATGAACATGAGATT
TTACGAAGTGCATTAAGAAATTTAAATGTAAACACAACTGCTATTCAAAATGAATGTGCC
AATTTACAACGTGCCTTAAATTCTGAAAATCCAACAAACATTGATGTACACTTGCAACAA
GTTCGCAATTGTGCCTACAATTTGGCAAAAGCTACTAAAACTTTAGTAACGCAATTTCAA
CAATAA
>g8284.t1 Gene=g8284 Length=661
MSRGKNRGLEVCGDCNSQDPPFASLNKGILLCSDCASVHRQLGTHLSIVKPLRHGQWNQS
LLSFVHQINSHNANSVWEHLLLDPNSKLQKKKPTPKDSIQTKSQFIRSKHVNLEFVLKPN
LNETSTNIEVELSKQLHASVRSANLETSLRLIAQGANCNYIHKDKNCTTPIHVAAKAGQS
AQCELLLIYGADINAVDGSGNNAIDLARQNQFTQLADRLVEASYEVTDRIIYFLCGRKPD
HTSGQHLIIPEQTKVEINEHLKIARGKLQLIPNKMFEELVMDLYEEVDRRETETIWSTIC
SNPEIGAVPFLVTNPHLSATRNQGRQKLARFSHAEFCGLLSDILVDASRRKNIANLRPLE
QMRGNRESTNSDDEPLYDAVCEDDDYGHASLPSMSQQNATNNSLPSTSTGTIVSSQTNVA
TAADNNSELEQLRKQLKNSELTITELKAIVEKLSLENSILKTRIDSSPISQEVQLRIHDT
PENSPTEPEPSKPLNVNSKRPVSMYEARQAPRDENRPPVTQSLYSVASNSSGSSSTTSLP
IVDEVTKRTEIVTRRIQELWLAMQDLSSKDKFIPCSERIRLGVTDLIAIFPKTATDEHEI
LRSALRNLNVNTTAIQNECANLQRALNSENPTNIDVHLQQVRNCAYNLAKATKTLVTQFQ
Q
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g8284.t1 | CDD | cd08833 | ArfGap_GIT | 2 | 110 | 6.67297E-48 |
| 15 | g8284.t1 | Coils | Coil | Coil | 419 | 456 | - |
| 16 | g8284.t1 | Coils | Coil | Coil | 605 | 625 | - |
| 14 | g8284.t1 | Gene3D | G3DSA:3.30.40.160 | - | 4 | 117 | 2.3E-29 |
| 12 | g8284.t1 | Gene3D | G3DSA:1.25.40.20 | - | 118 | 219 | 1.0E-16 |
| 13 | g8284.t1 | Gene3D | G3DSA:1.20.120.330 | Nucleotidyltransferases domain 2 | 528 | 661 | 7.4E-40 |
| 24 | g8284.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 480 | 501 | - |
| 6 | g8284.t1 | PANTHER | PTHR46097 | G PROTEIN-COUPLED RECEPTOR KINASE INTERACTING ARFGAP | 10 | 660 | 1.9E-206 |
| 7 | g8284.t1 | PANTHER | PTHR46097:SF3 | G PROTEIN-COUPLED RECEPTOR KINASE INTERACTING ARFGAP | 10 | 660 | 1.9E-206 |
| 8 | g8284.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 9 | 28 | 4.8E-7 |
| 9 | g8284.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 28 | 45 | 4.8E-7 |
| 3 | g8284.t1 | Pfam | PF01412 | Putative GTPase activating protein for Arf | 8 | 116 | 9.2E-25 |
| 2 | g8284.t1 | Pfam | PF13857 | Ankyrin repeats (many copies) | 151 | 207 | 2.1E-9 |
| 4 | g8284.t1 | Pfam | PF08518 | Spa2 homology domain (SHD) of GIT | 264 | 292 | 4.9E-10 |
| 5 | g8284.t1 | Pfam | PF08518 | Spa2 homology domain (SHD) of GIT | 324 | 351 | 2.2E-8 |
| 1 | g8284.t1 | Pfam | PF12205 | G protein-coupled receptor kinase-interacting protein 1 C term | 539 | 657 | 1.4E-36 |
| 27 | g8284.t1 | ProSiteProfiles | PS50115 | ARF GTPase-activating proteins domain profile. | 1 | 123 | 19.233 |
| 25 | g8284.t1 | ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 131 | 226 | 18.245 |
| 26 | g8284.t1 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 166 | 198 | 11.648 |
| 20 | g8284.t1 | SMART | SM00105 | arf_gap_3 | 4 | 123 | 5.0E-23 |
| 23 | g8284.t1 | SMART | SM00248 | ANK_2a | 131 | 160 | 810.0 |
| 22 | g8284.t1 | SMART | SM00248 | ANK_2a | 166 | 195 | 0.09 |
| 21 | g8284.t1 | SMART | SM00248 | ANK_2a | 199 | 228 | 2300.0 |
| 18 | g8284.t1 | SMART | SM00555 | spa2_6 | 264 | 294 | 1.6E-7 |
| 19 | g8284.t1 | SMART | SM00555 | spa2_6 | 324 | 354 | 1.6E-4 |
| 11 | g8284.t1 | SUPERFAMILY | SSF57863 | ArfGap/RecO-like zinc finger | 10 | 118 | 3.27E-27 |
| 10 | g8284.t1 | SUPERFAMILY | SSF48403 | Ankyrin repeat | 135 | 230 | 1.87E-15 |
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 |
| GO:0005096 | GTPase activator activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12487 (G protein-coupled receptor kinase interactor 2)
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.
