Gene loci information

Transcript annotation

  • This transcript has been annotated as Ras GTPase-activating protein raskol.

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 g4072 g4072.t1 isoform g4072.t1 30383881 30395601
chr_3 g4072 g4072.t1 exon g4072.t1.exon1 30383881 30384754
chr_3 g4072 g4072.t1 cds g4072.t1.CDS1 30383881 30384754
chr_3 g4072 g4072.t1 exon g4072.t1.exon2 30390307 30390418
chr_3 g4072 g4072.t1 cds g4072.t1.CDS2 30390307 30390418
chr_3 g4072 g4072.t1 exon g4072.t1.exon3 30391290 30391435
chr_3 g4072 g4072.t1 cds g4072.t1.CDS3 30391290 30391435
chr_3 g4072 g4072.t1 exon g4072.t1.exon4 30391507 30392864
chr_3 g4072 g4072.t1 cds g4072.t1.CDS4 30391507 30392864
chr_3 g4072 g4072.t1 exon g4072.t1.exon5 30392929 30393288
chr_3 g4072 g4072.t1 cds g4072.t1.CDS5 30392929 30393288
chr_3 g4072 g4072.t1 exon g4072.t1.exon6 30393444 30394682
chr_3 g4072 g4072.t1 cds g4072.t1.CDS6 30393444 30394682
chr_3 g4072 g4072.t1 exon g4072.t1.exon7 30394746 30394902
chr_3 g4072 g4072.t1 cds g4072.t1.CDS7 30394746 30394902
chr_3 g4072 g4072.t1 exon g4072.t1.exon8 30395115 30395316
chr_3 g4072 g4072.t1 cds g4072.t1.CDS8 30395115 30395316
chr_3 g4072 g4072.t1 exon g4072.t1.exon9 30395376 30395601
chr_3 g4072 g4072.t1 cds g4072.t1.CDS9 30395376 30395601
chr_3 g4072 g4072.t1 TTS g4072.t1 30396307 30396307
chr_3 g4072 g4072.t1 TSS g4072.t1 NA NA

Sequences

>g4072.t1 Gene=g4072 Length=4674
ATGGCGTTGATATTGCAAACAGCTGATCAAACATCATTCTCTGGCGATGAGTCATCACGT
CGTCGATCAACATTTTATGTGCCGTTATCGACTGAAGATTTGACACAGACAGAAGAAATT
GAAGAGATGAAAAAATCAAATGAAAATTTAAATATGAGTCGTTATTCATATGACTGGAGT
ATAAATGATTCCATTGATAGCTCAGATATTTTGCGAGAAAAATCGCAATATGCGTCAGAT
GATAGTACACGACTTAAACGTTATGGAATCGTATTAAATGGAAGTGTAAACATTGACGAC
AGCAATTTGGAAGTTCATGCTAATCATAAGCGCACGAAAACGAAGACAATCATGTCCTCT
ACACCCATTAAAGAGATTGTCAAGTGCAAAGAAATTATAAATGAACCACAGGCAACTGTC
ACTATCACATTGACAAGTCCGGTCAAAGAAAAATCTAAAACATTGCCAGTCAATACTGCA
CCAATTTTCCCGTCTAAAAATTCTTTTCTTCTAAAATCAACACCAAAGATCTCGTCATCA
GTTAATTATACTTCCCTTTCTGACTCATATGATCATCACCATAAAGTTGTAGCATCGCCA
AAGAAATCACTAAGCTTCATCCGGCGCACGCATTCGACAAAATTGTCACGTAATAATTCG
CTGCTCAAGTCACTGACGTCAAAATGTGTTGAGCATTCAAATGAGAATTTACCAGTGAAT
GTTTATGATTTGACAGTCGAAAGACTTGAATTGTATTTGAAGGCAGAAAATTGCGATGAA
TTGATGAAGGAACTTTTCTTACGTGAACCATTAGATATTTCTTTAACAGAAAATAATCAT
AATAAAGAAAATGAGGACGATGATGCACAATCGGACACATCGTATGAGAAAGCATGCAGA
CGAGGCTCAGCACCAAGTACACCGATGCTTACACAAAAACCTGAATCATCGTCAACCTCA
CGATTCACAATATTTTTCTCGAAACGATCAAATCCATTGAAGCGCACAAAATCGGTGACA
AAGCTGGAAAGAACGAAACGAGGAAGTGGAAATGGTAGTGGCGGCGGTGGAATACGAGGG
TCACGATCGCATGAGAGTCTTTTATCGAATCATGCAGTCATGTCAACGATCGATTTATCA
GTAATAGGCGCTGTAGGAGTCGCACCAGTTCACTCATCCGTGCTTGGTCGACGTCATTGT
TTTCAAGTGCGTGGTGGTCCTAGAGGGGAAAGATATTACAGCTGCGGTTCACGACAAGAA
CGTGACTTGTGGATTTATAGTTTGAGGAAGTCAATTCAACCAAATGCAGAAGGAACAAGA
CGAACTGACAATTCATTAAAAATGTGGATTTATGAGGCAAAAGCATTGCCACCAAAGAAG
AAATATTTTTGTGAAATTTGTCTCGATAAAACACTTTATGGTCGAACATCAGTGAAATTA
AAGACCGATTTACTATTTTGGGGTGAACATTTTGATTTTCCTGATATACCTGAAATCAAT
GTCATTTATGTCAATGTTTTTCGTGAATGTGAAAAGAAAAAGAAACGAGACAAACATCAA
CTTATTGGTACAGTTAAAATTCCAATACATGAAGTCACAAGTCGAACATTTTCTGAAGAT
TGGTATCCAATAATTTCGGATAAGCATGATAGTCTCAGTAAGAGCTCTTCGAAAGAGCCA
ATACCAACTTTACGCATAAAATGCCGCTTTCAAAGCATTGATATTTTACCAATTGATGTT
TATTCAACATTTCAAGCTTACCTTAAAGAACATTATAAGAAAATTTGTGAATGTCTTGAA
CCAGTTATTGGTGTTAAAGCTAAAGAAGATATTGGACAAGCAATGGTTTTATTAATGCAT
CATCAAGGAATGGCTGCAGAATTTTTAACAGAAATTATAACACTCGATTTACTTAGAGTT
GGCGATCAACGTCTGACGTTCCGTGGAAATTCACTTGCAACTAAAAGTATGGAAGCATTT
TTGAAACTTACTGGTGAGCAATATTTACAAGACACATTGTCAGCACCTATCAATGAAATT
ATCTCATCAGAACGTGATTGTGAAGTTGATCCATTAAAAGCAACAGGTTCATTATCAAGA
CAACAACAAGCATTAAGAAGTGCAGTTAAATTAGCATGGAATGCAATTAATGAAAGTTAT
CGACATTTTCCATCACAATTACGTGAATGCTTTGCAATTTTTCGTGAAAGACTTGTCAAT
ATTTCACGTGAAGATATGGCTGACAATTTAATATCGGCCAGTATCTTTTTGAGATTCTTA
TGTCCAGCAATTTTATCACCAAGTTTATTCAATATCACAAATGAACTGCCATCACAAAGA
GCGACAAGGAATTTGACACTTGTAGCCAAAACATTGCAAACACTCGCAAATTTCACTCGT
TTTCAAGGCAAAGAGAATTTCATGGAATTTTTGAATGATTTTCTTGAACAAGAAGCACCA
CGAATGAAGGACTTTTTAATGAAGATTTCGTCAAGAGTTGAACAACATCAAACTGATTCA
ATACTAGAATGGTCAGGTTATATTGATCAAGGCAAACAGTTGTCAATTTTACATTCATTA
CTTGTTGAAAATTTGCCAAAATTACCACCACAAAAGCAAGGAGAAATGACACAATTAATG
TCAATTCTTGAAAAAATCAGTCAAATTAAGGAATCAACTGAAAATAATTATCAGCGACAT
TTATCAGAGCAAAGTTTCTCATCAATGGAAAGATTAAATGGACACAAGGCATCAATGAAT
TCATTGCATGGAATCTCAAATCCACAACAAGGTCCTGAAAGAGGAATTATTCGTGGAGTT
TTGACACCGAATTCGTTGCAGAAAAATATTTTCTGCTATAACGATCCAACAGTATATTCA
CTATTAAATGGTGATCAAAAGATGAGCTTCAATCCATTGCAGCATTCACATTCAACATCG
AGTATTCAATCTTCACAGCACAATAATTCAGTGATTAATGGAAACAGTATTCAACATCAC
AATATTACAAGCACAAAACGTAATGAAAATTATTATCAAATTACAAGTAGTCTTGCACGT
AATGAACCAAAGAGTCCAGCATCATCATCATCAATTCGTGCAAGTACACTGCCAAGAAAT
AATCAACAAATTCAAAATGATGAAACAAATATTATTCAAATTGGATTGGATCCAAGTAAT
CCTTTTTCACGTAAAAGTCCAACACCGAGAATGCATAGTGGTTTATTAACTACAGCAAAT
GGTAATAGCAATAAAATTTCACAGCCACCACCTACAGTTTATACAACAAATGGACGTCAA
TTGAATGGCTCACAATTGAGTTTATTGAGTGATCGATCACAACATCAGTACTACCATCAT
CAACCACAACATCATATGCATCGATCAAATGGTTTAAATCTTGGTATTCCACATACGGAA
GCACCTTCGTCCTCATATGAATCACCAAATGGTAGCAATATGCCACGTGATTTAGAAGAT
TTTGATGATTTAATTAAATATAATGAAGAGCATGAACAGAGACAACAAAGACAACAAGAG
CAAAATCATCATCATCATCATCATCCAAATTTAAAAGCCAAAGGCAGTAATGTGTCAATT
GGTCATTCATCTGGCTATCAATCGATACAAACACAATCACAAAGCTCAAGTCCAATTGAA
AATGTAATTAGTACTACAAATGCTGCTAATCAAGCTGCACAATCACTCATACAACAAAAT
ATTGAATTCTTTAATTCTAAAATTCAAAGTTCGAGTTCATCAAGCAATGCAAGCACAAGC
AATCGACCAACAAAATTAAATGGAAAATATGGCTACATTAGTCCTAAATATTCTGTTGTT
CCACCATTAGCATTTAAAAATCCACTCTATCAAATGCAAAATGGTAATAATAATAATGAT
GGAAAAAGTTCTTCATTAACACCATCAAGCAGTGAAGAACGAATTACAATTGATGATAGA
CAAAATGTGCTGAATAATAACAATCTCGTTTCGTCCTCAACAAATGCACCCGGTATTATT
GACACATCATCACTGAATGGTAGACGAATGGGTAGCAATCGTATGCCGCGAACAAATCCA
CTTGTTCAATATAAACGCGATGATGGAATCTACGACAATCATAATCATATGAATGGGAAT
AATAACAATAACAATAATCAGTTGGCATACTTTAATAATCGCTATGAAAGACGTCTGAGT
GTTGAATCAGCAAGGACATTGTCTGATAGTTCTAGTGATACTGAAGTTCATCATCATAAA
GAGGGCAAAAGACGACGCAATGCGAATAAATCTCAAATCGAACAATGCGAGAAAGAAATT
CATCGATTGCAATCTAGTGTCGATATTTTACGTCAGAAGTTGGAAGAAAGTGAACTAAAA
GAAACGAGCGATAGTATTGACGCAATTGCGCATCAGAGTGACAATAAAATTAGAAGTATC
ATATCAAGATTGCTAGCAATGGAAGAAGAATTAAGACGTGAACAATATAAAATGTCGCTA
ATAATAAATCACAAGCAGCGAGTGATTGAAGCACAGGGACAACAAATTGCAGAATTGGAT
GCTGCCAATAATCGCCTATTAACCGAATTGACATGTTTGAGAAATCGATTCGATATGAAA
GGCAACAACCAAACACTGACTGTGACTGAAGATGACGATACGACCAACTTTTAA

>g4072.t1 Gene=g4072 Length=1557
MALILQTADQTSFSGDESSRRRSTFYVPLSTEDLTQTEEIEEMKKSNENLNMSRYSYDWS
INDSIDSSDILREKSQYASDDSTRLKRYGIVLNGSVNIDDSNLEVHANHKRTKTKTIMSS
TPIKEIVKCKEIINEPQATVTITLTSPVKEKSKTLPVNTAPIFPSKNSFLLKSTPKISSS
VNYTSLSDSYDHHHKVVASPKKSLSFIRRTHSTKLSRNNSLLKSLTSKCVEHSNENLPVN
VYDLTVERLELYLKAENCDELMKELFLREPLDISLTENNHNKENEDDDAQSDTSYEKACR
RGSAPSTPMLTQKPESSSTSRFTIFFSKRSNPLKRTKSVTKLERTKRGSGNGSGGGGIRG
SRSHESLLSNHAVMSTIDLSVIGAVGVAPVHSSVLGRRHCFQVRGGPRGERYYSCGSRQE
RDLWIYSLRKSIQPNAEGTRRTDNSLKMWIYEAKALPPKKKYFCEICLDKTLYGRTSVKL
KTDLLFWGEHFDFPDIPEINVIYVNVFRECEKKKKRDKHQLIGTVKIPIHEVTSRTFSED
WYPIISDKHDSLSKSSSKEPIPTLRIKCRFQSIDILPIDVYSTFQAYLKEHYKKICECLE
PVIGVKAKEDIGQAMVLLMHHQGMAAEFLTEIITLDLLRVGDQRLTFRGNSLATKSMEAF
LKLTGEQYLQDTLSAPINEIISSERDCEVDPLKATGSLSRQQQALRSAVKLAWNAINESY
RHFPSQLRECFAIFRERLVNISREDMADNLISASIFLRFLCPAILSPSLFNITNELPSQR
ATRNLTLVAKTLQTLANFTRFQGKENFMEFLNDFLEQEAPRMKDFLMKISSRVEQHQTDS
ILEWSGYIDQGKQLSILHSLLVENLPKLPPQKQGEMTQLMSILEKISQIKESTENNYQRH
LSEQSFSSMERLNGHKASMNSLHGISNPQQGPERGIIRGVLTPNSLQKNIFCYNDPTVYS
LLNGDQKMSFNPLQHSHSTSSIQSSQHNNSVINGNSIQHHNITSTKRNENYYQITSSLAR
NEPKSPASSSSIRASTLPRNNQQIQNDETNIIQIGLDPSNPFSRKSPTPRMHSGLLTTAN
GNSNKISQPPPTVYTTNGRQLNGSQLSLLSDRSQHQYYHHQPQHHMHRSNGLNLGIPHTE
APSSSYESPNGSNMPRDLEDFDDLIKYNEEHEQRQQRQQEQNHHHHHHPNLKAKGSNVSI
GHSSGYQSIQTQSQSSSPIENVISTTNAANQAAQSLIQQNIEFFNSKIQSSSSSSNASTS
NRPTKLNGKYGYISPKYSVVPPLAFKNPLYQMQNGNNNNDGKSSSLTPSSSEERITIDDR
QNVLNNNNLVSSSTNAPGIIDTSSLNGRRMGSNRMPRTNPLVQYKRDDGIYDNHNHMNGN
NNNNNNQLAYFNNRYERRLSVESARTLSDSSSDTEVHHHKEGKRRRNANKSQIEQCEKEI
HRLQSSVDILRQKLEESELKETSDSIDAIAHQSDNKIRSIISRLLAMEEELRREQYKMSL
IINHKQRVIEAQGQQIAELDAANNRLLTELTCLRNRFDMKGNNQTLTVTEDDDTTNF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4072.t1 CDD cd04013 C2_SynGAP_like 434 578 5.85949E-75
15 g4072.t1 CDD cd05136 RasGAP_DAB2IP 569 892 2.44164E-171
12 g4072.t1 Coils Coil Coil 883 903 -
14 g4072.t1 Coils Coil Coil 1426 1460 -
13 g4072.t1 Coils Coil Coil 1509 1536 -
11 g4072.t1 Gene3D G3DSA:2.60.40.150 - 425 568 1.6E-12
10 g4072.t1 Gene3D G3DSA:1.10.506.20 - 576 887 1.8E-130
9 g4072.t1 Gene3D G3DSA:1.10.506.10 - 626 845 1.8E-130
22 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 277 295 -
24 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 277 320 -
23 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 305 320 -
21 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 1018 1046 -
20 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 1171 1192 -
25 g4072.t1 MobiDBLite mobidb-lite consensus disorder prediction 1402 1432 -
4 g4072.t1 PANTHER PTHR10194 RAS GTPASE-ACTIVATING PROTEINS 324 1530 0.0
5 g4072.t1 PANTHER PTHR10194:SF125 RAS GTPASE-ACTIVATING PROTEIN-RELATED 324 1530 0.0
2 g4072.t1 Pfam PF00168 C2 domain 445 544 5.3E-10
1 g4072.t1 Pfam PF00616 GTPase-activator protein for Ras-like GTPase 701 797 1.2E-15
3 g4072.t1 Pfam PF12004 Domain of unknown function (DUF3498) 1473 1537 2.3E-16
19 g4072.t1 ProSitePatterns PS00509 Ras GTPase-activating proteins domain signature. 753 767 -
26 g4072.t1 ProSiteProfiles PS50018 Ras GTPase-activating proteins profile. 607 797 38.691
17 g4072.t1 SMART SM00239 C2_3c 445 541 1.4E-7
18 g4072.t1 SMART SM00323 RasGAP_2 556 897 1.2E-84
7 g4072.t1 SUPERFAMILY SSF50729 PH domain-like 373 465 2.0E-8
8 g4072.t1 SUPERFAMILY SSF49562 C2 domain (Calcium/lipid-binding domain, CaLB) 446 572 1.87E-11
6 g4072.t1 SUPERFAMILY SSF48350 GTPase activation domain, GAP 579 879 1.88E-73

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:0043087 regulation of GTPase activity BP
GO:0007165 signal transduction BP

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