General information for g4513.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Centaurin-gamma-1A.
Parent gene
- The parent gene g4513 is located on chr_2: 2961061..2964955 (+ 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 | g4513 | g4513.t1 | TSS | g4513.t1 | 2957230 | 2957230 |
| chr_2 | g4513 | g4513.t1 | isoform | g4513.t1 | 2957575 | 2961061 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon1 | 2957575 | 2957770 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS1 | 2957575 | 2957770 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon2 | 2957885 | 2958117 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS2 | 2957885 | 2958117 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon3 | 2958181 | 2958322 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS3 | 2958181 | 2958322 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon4 | 2958386 | 2959651 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS4 | 2958386 | 2959651 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon5 | 2959713 | 2960009 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS5 | 2959713 | 2960009 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon6 | 2960071 | 2960223 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS6 | 2960071 | 2960223 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon7 | 2960282 | 2960405 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS7 | 2960282 | 2960405 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon8 | 2960479 | 2960623 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS8 | 2960479 | 2960623 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon9 | 2960688 | 2960808 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS9 | 2960688 | 2960808 |
| chr_2 | g4513 | g4513.t1 | exon | g4513.t1.exon10 | 2960931 | 2961061 |
| chr_2 | g4513 | g4513.t1 | cds | g4513.t1.CDS10 | 2960931 | 2961061 |
| chr_2 | g4513 | g4513.t1 | TTS | g4513.t1 | 2961143 | 2961143 |
Sequences
>g4513.t1 Gene=g4513 Length=2808
ATGGCAATAAACAATAATAACACATCTTCGAGAACGCAACTTCAAACGATGATCAATAAT
CCTTTTGCGATCCGTCAGGAAATTCAAAGATTTGAGTCTGTTCATCCATCAATCTACGCC
GTATACGACTTGATTGAACTTATTCCTGATATACAAATAGCAACACAAATTCGAGAACAT
ATAGTTAATATTGAAGATTCATTCGTCAACAGTCAAGAATGGACGCTCTCGAGATCAGTT
CCAGATTTACGATTAGGAATTGTAGGATCATTAAATAGTGGAAAATCGGCACTTGTTCAT
CGATATTTAACTGGAAGTTATATGCAAGAAGAATCGCCAGAAGGTGGACGATTTAAGAAA
GAAGTTATTATCGATAATCAAAGTTATTTGCTATTAATTCGAGATGAAGGAGGTGCACCA
GAATTACAATTCTCCGCTTGGGTTGACGCTGTAATTTTTGTCTTTAGCCTTGAAAATGAA
GCTAGCTTCAATGCAATATACGCATATTATACAAAAATGGCACATTATAGAAATGTTGAA
AACTTGCCTATAATCTTGGTAGGAACTCAAGATGCAATTAGCGAACGATGTCCGAGAATA
ATTGATGATTCACGTGGGCGAAAACTTGCAAACGATTTAAAAAGATGTTCATATTTTGAG
ACATGTGCAACATATGGATTGAATGTTGAACGAGTATTTCAAGAAGCATGTCAGAAAATT
GTTCAAACACGATTAACCATTCCAGCATTGACACCAACAAATTCAAGACCAACAACGCCT
ACGACACGATTAGGTATAACATCACTTCATTCTTCCAATTATAATCAACCATTAAACATG
AGTCCGACAAGTACTGTAAATGCAAATGTAAACGGTTTGATGAGTCCATCATTCAATATG
AATAATTTATCACCAAGTCACCTTCAACTTAACCCTTTATTACCTCATCACAGGCAGCAA
AGTTTATCAGCATCATCGAATCATCACACGGATATTGATAATAACTCAAGTCCTCTTACA
AAATATTCAAGTGGCACGTCGCAAAGTGCTGTAATGCTTGGAGGTGAAAATAATAATGCT
AAATTAAATCAATTCGGTCAAATGATGATGATGCCACCACCATCACTGGAAAATTTACAA
TTGCTTAATATTGTGCCATCGTCAAAAGAAAAAGAAGCTTCAACTCCAACAAGCACACCA
ACAACTTCTAGAAAATCACGACGACGTTCAAATCTTTTTATCTCATCAAAAAAAGAAGAA
AAATCAAAAAGTTCTGAAACTGATAAATTGGGCAGTGGACGATCGATTCCTTTAAAACAA
GGATATCTTTATAAACGCAGTAGTAAATCATTGAACAAAGAGTGGAAGAAAAAATATGTA
ACTTTATGTGATGATGGCAGATTAACGTATCATTCATCTCTTCATGATTATATGGACAAT
GTTAATGGAAAAGAAATTCCACTTCAGTATGTGACCGTAAAAGTTCCAGGACAAAAGCCT
CGAGGCTCGAAATCAATTATCACAAATAGTGCATTGACGAAAAAAAATGGAAAAAATAAT
GTTAACAATAATGAGACATTAATTAGCGAAAGCTTCGGTGCATTATCTCTTTTGAGAGAT
AAAAGTGATAAAAATTTCTTGACACCATATGAGAATGTTAAAGAACTTGGCAAAACGAGC
TCTCAATCAGGTGATGAATCATCAGGCATTGCATTGAGTATCAGCAATTCACAAAATCTT
GGTGATAGCAATGCAAAAATTGATTCTCAAACGCCAAATGTAAAGAAAAGACATCGAAGA
ATGAAAAGCAGCAGTTTAAAAAATAATGACATTGAAGATCCCGATGGATTCGAGTTTTAT
ATTGTTTCATTGGACAACAAGCAATGGCATTTTGAAGCAGCAAGTGCAGTTGATCGTGAC
GAGTGGGTGCTTATAATAGAGCAGGAAATTTTTAAATCGTTGACAGGAAATGAGAGTTCT
AAATCAAAAACACAGAATCCCAATGATGTTGCACAATTAATTACAAATATAAAGACGGAA
GTTCCTGGAAATAGTTTTTGTGTTGATTGTGACTCACCCGATCCTGAGTGGGCGAGTTTA
AATCTTGGCATATTAATGTGTATTGAATGCTCTGGTGTGCATCGAAATTTGGGATCTCAT
ATTTCTAAAGTTCGTTCGCTTACTTTAGATGAATGGCCACCAGGCCATTTAGCAGTGATG
CTTTCAATTGGAAATTCTCTATCGAATTCTATTTGGGAATTTAATACAAAAGGACGTGCA
AAACCAGTTCCATCATCAACACGCGATGAGAAGGAAAATTGGATAAGACGAAAATATGAA
GCCAAAGAATTTATACAACCATTAAATACGACAGTATCTGTGGGTCAACAATTGATAGAA
GCTGTCGTAAAGAGCGATATGAAAACAATTATACTGTTGTTGGCACATACAAACAACGAA
TTTGTAAATTGCACTGTGAACTCGAGGGATCTTCGATCACCACTCCATTTTAGCTGTGCT
ATTGGAAATTTAAGTATTACCCAATTATTAATTTGGTACAATGCGAATCTAAAACAAACT
GATCATGAGGGAAGAACATGCTTGACTTATGGCAAAGCAGCAAACTCTTTGGCGATTGTA
AAGCAAACTAACAATAAACCTCATCACGTTTCGTCAGAGACTACCAGTGCATTAGTGAAC
CTTTTAATATCTTTGGATTGCATTGATCCACATCCTTTAACAAGTAACGCTACCAACAAT
ACCTTGTCTAGGCAGCATGTTCTCGATAAAGTGCAATCACTATCATAA
>g4513.t1 Gene=g4513 Length=935
MAINNNNTSSRTQLQTMINNPFAIRQEIQRFESVHPSIYAVYDLIELIPDIQIATQIREH
IVNIEDSFVNSQEWTLSRSVPDLRLGIVGSLNSGKSALVHRYLTGSYMQEESPEGGRFKK
EVIIDNQSYLLLIRDEGGAPELQFSAWVDAVIFVFSLENEASFNAIYAYYTKMAHYRNVE
NLPIILVGTQDAISERCPRIIDDSRGRKLANDLKRCSYFETCATYGLNVERVFQEACQKI
VQTRLTIPALTPTNSRPTTPTTRLGITSLHSSNYNQPLNMSPTSTVNANVNGLMSPSFNM
NNLSPSHLQLNPLLPHHRQQSLSASSNHHTDIDNNSSPLTKYSSGTSQSAVMLGGENNNA
KLNQFGQMMMMPPPSLENLQLLNIVPSSKEKEASTPTSTPTTSRKSRRRSNLFISSKKEE
KSKSSETDKLGSGRSIPLKQGYLYKRSSKSLNKEWKKKYVTLCDDGRLTYHSSLHDYMDN
VNGKEIPLQYVTVKVPGQKPRGSKSIITNSALTKKNGKNNVNNNETLISESFGALSLLRD
KSDKNFLTPYENVKELGKTSSQSGDESSGIALSISNSQNLGDSNAKIDSQTPNVKKRHRR
MKSSSLKNNDIEDPDGFEFYIVSLDNKQWHFEAASAVDRDEWVLIIEQEIFKSLTGNESS
KSKTQNPNDVAQLITNIKTEVPGNSFCVDCDSPDPEWASLNLGILMCIECSGVHRNLGSH
ISKVRSLTLDEWPPGHLAVMLSIGNSLSNSIWEFNTKGRAKPVPSSTRDEKENWIRRKYE
AKEFIQPLNTTVSVGQQLIEAVVKSDMKTIILLLAHTNNEFVNCTVNSRDLRSPLHFSCA
IGNLSITQLLIWYNANLKQTDHEGRTCLTYGKAANSLAIVKQTNNKPHHVSSETTSALVN
LLISLDCIDPHPLTSNATNNTLSRQHVLDKVQSLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g4513.t1 | CDD | cd04103 | Centaurin_gamma | 83 | 240 | 3.80132E-104 |
| 18 | g4513.t1 | CDD | cd01250 | PH_AGAP | 434 | 654 | 5.88315E-56 |
| 17 | g4513.t1 | CDD | cd08836 | ArfGap_AGAP | 670 | 780 | 3.01134E-70 |
| 11 | g4513.t1 | Gene3D | G3DSA:3.40.50.300 | - | 66 | 245 | 4.4E-62 |
| 15 | g4513.t1 | Gene3D | G3DSA:2.30.29.30 | - | 434 | 534 | 3.9E-33 |
| 14 | g4513.t1 | Gene3D | G3DSA:2.30.29.30 | - | 559 | 653 | 1.8E-14 |
| 13 | g4513.t1 | Gene3D | G3DSA:3.30.40.160 | - | 654 | 789 | 1.4E-45 |
| 12 | g4513.t1 | Gene3D | G3DSA:1.25.40.20 | - | 790 | 903 | 5.5E-10 |
| 25 | g4513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 387 | 432 | - |
| 27 | g4513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 387 | 409 | - |
| 26 | g4513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 412 | 428 | - |
| 24 | g4513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 581 | 608 | - |
| 3 | g4513.t1 | PANTHER | PTHR45819 | CENTAURIN-GAMMA-1A | 19 | 914 | 1.1E-296 |
| 5 | g4513.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 684 | 703 | 1.2E-19 |
| 4 | g4513.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 703 | 720 | 1.2E-19 |
| 6 | g4513.t1 | PRINTS | PR00405 | HIV Rev interacting protein signature | 724 | 745 | 1.2E-19 |
| 1 | g4513.t1 | Pfam | PF00071 | Ras family | 87 | 241 | 2.2E-18 |
| 2 | g4513.t1 | Pfam | PF01412 | Putative GTPase activating protein for Arf | 679 | 786 | 3.9E-38 |
| 29 | g4513.t1 | ProSiteProfiles | PS51419 | small GTPase Rab1 family profile. | 77 | 281 | 12.056 |
| 32 | g4513.t1 | ProSiteProfiles | PS50003 | PH domain profile. | 436 | 651 | 10.646 |
| 31 | g4513.t1 | ProSiteProfiles | PS50115 | ARF GTPase-activating proteins domain profile. | 668 | 792 | 27.711 |
| 28 | g4513.t1 | ProSiteProfiles | PS50297 | Ankyrin repeat region circular profile. | 830 | 881 | 11.294 |
| 30 | g4513.t1 | ProSiteProfiles | PS50088 | Ankyrin repeat profile. | 830 | 862 | 9.644 |
| 19 | g4513.t1 | SMART | SM00173 | ras_sub_4 | 80 | 243 | 1.2E-8 |
| 22 | g4513.t1 | SMART | SM00175 | rab_sub_5 | 83 | 243 | 4.9E-6 |
| 23 | g4513.t1 | SMART | SM00174 | rho_sub_3 | 85 | 243 | 2.2E-4 |
| 20 | g4513.t1 | SMART | SM00233 | PH_update | 437 | 653 | 6.1E-14 |
| 21 | g4513.t1 | SMART | SM00105 | arf_gap_3 | 668 | 792 | 1.8E-49 |
| 9 | g4513.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 80 | 247 | 3.46E-34 |
| 8 | g4513.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 434 | 649 | 4.42E-15 |
| 10 | g4513.t1 | SUPERFAMILY | SSF57863 | ArfGap/RecO-like zinc finger | 680 | 787 | 3.53E-40 |
| 7 | g4513.t1 | SUPERFAMILY | SSF48403 | Ankyrin repeat | 797 | 883 | 4.51E-10 |
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:0005525 | GTP binding | MF |
| GO:0005096 | GTPase activator activity | MF |
| GO:0003924 | GTPase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12491 (Arf-GAP with GTPase, ANK repeat and PH domain-containing protein 1/3/4/5/6/9/11)
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.
