General information for g2168.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as SLIT-ROBO Rho GTPase-activating protein 1.
Parent gene
- The parent gene g2168 is located on chr_3: 15764482..15773557 (+ 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_3 | g2168 | g2168.t2 | isoform | g2168.t2 | 15764482 | 15773557 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon1 | 15764482 | 15764557 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS1 | 15764482 | 15764557 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon2 | 15767809 | 15767902 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS2 | 15767809 | 15767902 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon3 | 15768056 | 15768145 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS3 | 15768056 | 15768145 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon4 | 15768219 | 15768540 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS4 | 15768219 | 15768540 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon5 | 15768608 | 15768673 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS5 | 15768608 | 15768673 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon6 | 15768741 | 15768869 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS6 | 15768741 | 15768869 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon7 | 15768958 | 15770384 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS7 | 15768958 | 15770384 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon8 | 15770440 | 15770607 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS8 | 15770440 | 15770607 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon9 | 15771007 | 15771081 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS9 | 15771007 | 15771081 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon10 | 15771141 | 15771337 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS10 | 15771141 | 15771337 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon11 | 15771406 | 15771602 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS11 | 15771406 | 15771602 |
| chr_3 | g2168 | g2168.t2 | exon | g2168.t2.exon12 | 15772601 | 15773557 |
| chr_3 | g2168 | g2168.t2 | cds | g2168.t2.CDS12 | 15772601 | 15773557 |
| chr_3 | g2168 | g2168.t2 | TSS | g2168.t2 | NA | NA |
| chr_3 | g2168 | g2168.t2 | TTS | g2168.t2 | NA | NA |
Sequences
>g2168.t2 Gene=g2168 Length=3798
ATGTTTCAATGTATAATCCAGCAACGTAACGGTTGGATTCATGTGCCAAGTCAAGAATTT
CGCGACGTATTTCCAGACATTCGTCTGCAACTCAATGAGCAACTACGATGCCTAGACATT
CGAGTAGAATCACAGATCTCATTAATTCAAGAACTACAGGAATTCTACAGACGACGAGGA
GAACTTGAATTGGACTATAGCAAAAACTTGGAAAAATTGGCAAAAAATTTACAATTGCGA
CATAAAGAACAAAAACAAAAACGCGAGCAATGGCCAATGTTTTCAACACATGCTTGCTGG
CAACAATTGATTCAACAGACAAAAAGTTTGGCACGTGATCATGCAACATTAGCTGATATA
TATTCTACTCAATTAGTACAGCGTCTTCAATCAGTTTATGATGATTGTCAACGTATTTAT
AAGAGATGTCGTGAAGTTGGCTACGAGATTCATGAGGAAATTCTTCGTGTTCTACAGGAA
CTGCATACAACAATGAAAACTTATCATGGATATCAATTGGAATGTAGAGAAGCCGAAAAG
AAATTGCGTGCAGCCGAAGTGCAACGTGCGAAAATTCAACAAAGTATACCAAAAGAGAAA
CTTGATCGTAACAAGAAATTCAAAGTAATTGAAAAGGAAGTGCTGAAGCGAAAAAACAAA
TATACTGATGCGAGGCTAAAGGCGTTGAAAGCGAAAAATGAATATCAGTTATGCTTGGAA
GCATCCAATACAACAATTCATAAATACTTTGTGGAAGATCTAAGCGATCTGATTGATTGT
ATGGATCTTGGATTTCATTCAGTAATATCGCGCGCACTCTTATTACATGTGACAGCCGAT
CAAGGAAGATGTCGTCAAGTGCTCAATAACTCTGAATTGCTTTCGCACATCATTCATTCA
ATGGATAGTCGTGCTGATAAACAAAAATTCTTGGAACAATATCATTCTGCATTTATGATA
CCAAAAAGACTTGAATTTCAAGGTGGACCACAAGAAGATTTGATTGTTCCATCTCAAAAA
GAAATTCCTCTGCCACAACCGAGTCTAACGACTATTGTTGAATGTGAATTGCAAAAAACT
TTAAATGTAGAAATGGACCAACGTTTAACACAACTTGTTGCACGCACAAATCATTTGAAA
ATGGAATCGGATGAAATTTGGAAGACAGTTGAAACAGCAGAGATCAATCTACTTGAAATT
CTTAACCAGAAAGATTATGATGTTAGTAATTCATTTGGAACGGGAAATACTGGAAGTGAC
AATAATTCAATGCAAAGCTTCCAATTACAATATAATTACTCACATAATCAACACACACCC
AAGCTTAACGATTCAATGTCTACGAAATTACGAAATGATAAACAAGAGATTGAAGAGTTT
TATCTATCTAAAATAAGAGAATATATTTTATGCACATCTCGCATTGCACGACTCGATTCA
AAAGCAGAATTCCTACGAAATGCATTAACAAAAGACTCAAATTCTCACAATAACAATTCA
CAAAAGCCGATTACAGTACCGAAACGAAAGAGAATTGGTCGGATGAATTTATCAGGCCGT
CCAAAATTATTTGGTGGTTCACTCGAAGAATATTTGGAAGCGACAGGAGAAGAAATTCCA
TTGATTGTGAGAAGCTGCATACGAGTGATAAATCTTTATGGATTGCATCATCAAGGCATT
TTTAGAGTGAGTGGTTCGCAAGTTGAAATAACAAATTTCAGAGAGTGGTTCGAGCGTGGA
GAAGATCCTCTAGCTGAAGTAACCGATGCGTCTGATATAAATTCCATTGCTGGAGTTATG
AAACTTTATTTGCGTGAGCTACGTGAGCCTCTATTTCCCACAATTTATTTTGACCACTTG
ATATCGCTTGCGCAAATTGAATCGAAGCATGACATGGTTATGGGTGTGAGAAAATTTTTG
CAAGCACTTCCACGATCAGTCGTTTGTGTTATGCGCTATCTTTTTGCTTTTCTCAATCAT
CTTTCTGAGTACGCTGATGAGAATATGATGTCTGCTTACAATCTTGCAATTTGTTTTGGC
CCAACTTTAATGCGAACCCCAGATGATAAGGATCAAGTTCAATATCAAAACCAAATAAAT
GCATTAATTGAGTCGATGATTGTATTCCATGAAGATTTGTTCCCAAAAGATCTACCAGGC
ATTAAATATGAAAAATATATCACTCCGGGGACATATGATGATATTGACATCGGTGATTCA
CCCACTGAGCAAAATACTGAAGACCCCGATACACAATCAGAAGATGATTCTGACTCATAT
GAAGCTACAGCTCTCTTTGACTTTGATGCACGCTCAGAACGCGAATTGTCATTTAGGAAA
GGGGATAATATTCAACTTTATAATCAAATCAGCGGCGACTGGTGGAAAGCTTGCATTAAT
GGAAAAGTTGGTCTTGTTGCTGATAAATTTATTTCTTTGAAAATCAAGGGTGAGGAAAGA
AGTGGAATAGAGAAACATAGTGGAGATTTTCTTATGAAATCGTCAAGCTCAGAGGAATCT
GTTAGAAAGAGATCTCATAGTGTAGGTGGAAATAGTTTAGCACCTAGTACACTTTCTACC
ATGACAACTACAAATATTTGTGACATAAATGATGCTGTGATGGATAGTAAACAGGATATA
ATCGATGGCACAAAAAAATATGTATATCATGATGAGCCACATTCATTTGAAACTTCAATG
GACTATTTGGTAGTTTCTTCAAACAACAATAGTATGAATGAATCGAATGCTGATCTTGAT
AGCAGTGTTACCTCAGCAGATAGTCGATTGGCGACAAGTACATCGGAGCACATTTATAGC
AACAGTCACTTTAAATTTGAGAATTCCGAAGAACACGATGGTAATAAAAAGCCATCTGAA
CCAATTTATGCAGAACCTTCAAAAATACAAAAACCACAACCGTCTACAATAAATAACGAA
TATCAACCGCTTAGCATTTTCCAACAAAACCGCGAGAAATGGCAAAAGAGAGCTAGTGTA
GATAATTCAGTAGTACTTCAACAAGCTTGCACATTGCAACCACAATCTTCTGTTCTTTCA
ATAAATTCTAGACCTCAATCTGCAATTTTGACTCGCAAACAACCAGATCTCGTGATTGAT
CTTCCACCACCTTCGAAACAAGACAATATCACTCCACCACTTTCTTCAGGCTCAACTTCA
GCATCTTCATCAATGACTTCACTCGATCATCATCAAGTGATCAATGATGAAGCAAATATC
AATGAATATGATGATGCAGATGAGACTCTTGGTGATCATTTTGCTAAACAAAATCAAAGT
ACACTTAAGAAGAATGAAAAATTTAGTAGTATAGAAGGACCAAAGAAAATTATTACAGAA
AAGAGTGAAGCATCATCTTCATCAAAGGCTTCAAATAAAATTGAAGAAATTGTACTTCGA
ATTGAGGAATCAAGTGAAGTTACTGATACTAATCGTCTATCAACAGGTTCTACTTCTTCT
CTTATGAAAATTGAGCTTGAAAAAAGTCCAATTCCTTTACGAAACACTCAAAAATTTGTG
AATCAATTTGCAGATTTGAAGCTCACAGGTGGTAGTCGCACAATTTCACCAAAAACCGCA
ACAACTCCGACGGAAACGATCACAACTGCCAATCAATCCGATAAATCTGAAAAAGAGCGC
ACGAGTTTCTCACTTGGAAGTTTTAAACCAACAATTTCCATGAAACCGCAAGTTCTTACA
AAGAAGAAATCAATTTTCTTACAAGCTCATTCATCGTCATCAACACAAACCGGAAGTTCA
CAGGAAAATCCACATTAG
>g2168.t2 Gene=g2168 Length=1265
MFQCIIQQRNGWIHVPSQEFRDVFPDIRLQLNEQLRCLDIRVESQISLIQELQEFYRRRG
ELELDYSKNLEKLAKNLQLRHKEQKQKREQWPMFSTHACWQQLIQQTKSLARDHATLADI
YSTQLVQRLQSVYDDCQRIYKRCREVGYEIHEEILRVLQELHTTMKTYHGYQLECREAEK
KLRAAEVQRAKIQQSIPKEKLDRNKKFKVIEKEVLKRKNKYTDARLKALKAKNEYQLCLE
ASNTTIHKYFVEDLSDLIDCMDLGFHSVISRALLLHVTADQGRCRQVLNNSELLSHIIHS
MDSRADKQKFLEQYHSAFMIPKRLEFQGGPQEDLIVPSQKEIPLPQPSLTTIVECELQKT
LNVEMDQRLTQLVARTNHLKMESDEIWKTVETAEINLLEILNQKDYDVSNSFGTGNTGSD
NNSMQSFQLQYNYSHNQHTPKLNDSMSTKLRNDKQEIEEFYLSKIREYILCTSRIARLDS
KAEFLRNALTKDSNSHNNNSQKPITVPKRKRIGRMNLSGRPKLFGGSLEEYLEATGEEIP
LIVRSCIRVINLYGLHHQGIFRVSGSQVEITNFREWFERGEDPLAEVTDASDINSIAGVM
KLYLRELREPLFPTIYFDHLISLAQIESKHDMVMGVRKFLQALPRSVVCVMRYLFAFLNH
LSEYADENMMSAYNLAICFGPTLMRTPDDKDQVQYQNQINALIESMIVFHEDLFPKDLPG
IKYEKYITPGTYDDIDIGDSPTEQNTEDPDTQSEDDSDSYEATALFDFDARSERELSFRK
GDNIQLYNQISGDWWKACINGKVGLVADKFISLKIKGEERSGIEKHSGDFLMKSSSSEES
VRKRSHSVGGNSLAPSTLSTMTTTNICDINDAVMDSKQDIIDGTKKYVYHDEPHSFETSM
DYLVVSSNNNSMNESNADLDSSVTSADSRLATSTSEHIYSNSHFKFENSEEHDGNKKPSE
PIYAEPSKIQKPQPSTINNEYQPLSIFQQNREKWQKRASVDNSVVLQQACTLQPQSSVLS
INSRPQSAILTRKQPDLVIDLPPPSKQDNITPPLSSGSTSASSSMTSLDHHQVINDEANI
NEYDDADETLGDHFAKQNQSTLKKNEKFSSIEGPKKIITEKSEASSSSKASNKIEEIVLR
IEESSEVTDTNRLSTGSTSSLMKIELEKSPIPLRNTQKFVNQFADLKLTGGSRTISPKTA
TTPTETITTANQSDKSEKERTSFSLGSFKPTISMKPQVLTKKKSIFLQAHSSSSTQTGSS
QENPH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g2168.t2 | CDD | cd07656 | F-BAR_srGAP | 30 | 270 | 2.48815E-114 |
| 14 | g2168.t2 | CDD | cd04383 | RhoGAP_srGAP | 522 | 709 | 2.20581E-100 |
| 13 | g2168.t2 | Coils | Coil | Coil | 67 | 87 | - |
| 12 | g2168.t2 | Coils | Coil | Coil | 168 | 195 | - |
| 10 | g2168.t2 | Gene3D | G3DSA:1.20.1270.60 | Arfaptin | 28 | 330 | 1.6E-66 |
| 11 | g2168.t2 | Gene3D | G3DSA:1.10.555.10 | - | 472 | 718 | 1.6E-55 |
| 9 | g2168.t2 | Gene3D | G3DSA:2.30.30.40 | SH3 Domains | 751 | 822 | 4.1E-17 |
| 25 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 734 | 759 | - |
| 22 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 740 | 759 | - |
| 19 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 830 | 850 | - |
| 20 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1043 | 1067 | - |
| 23 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1050 | 1067 | - |
| 24 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1194 | 1211 | - |
| 26 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1194 | 1229 | - |
| 21 | g2168.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1244 | 1265 | - |
| 4 | g2168.t2 | PANTHER | PTHR14166 | SLIT-ROBO RHO GTPASE ACTIVATING PROTEIN | 19 | 1060 | 0.0 |
| 5 | g2168.t2 | PANTHER | PTHR14166:SF17 | SLIT-ROBO GAP HOMOLOG | 19 | 1060 | 0.0 |
| 1 | g2168.t2 | Pfam | PF00611 | Fes/CIP4, and EFC/F-BAR homology domain | 34 | 116 | 4.7E-16 |
| 3 | g2168.t2 | Pfam | PF00620 | RhoGAP domain | 540 | 690 | 4.6E-42 |
| 2 | g2168.t2 | Pfam | PF00018 | SH3 domain | 763 | 806 | 4.0E-12 |
| 27 | g2168.t2 | ProSiteProfiles | PS51741 | F-BAR domain profile. | 18 | 306 | 25.16 |
| 28 | g2168.t2 | ProSiteProfiles | PS50238 | Rho GTPase-activating proteins domain profile. | 526 | 714 | 41.595 |
| 29 | g2168.t2 | ProSiteProfiles | PS50002 | Src homology 3 (SH3) domain profile. | 757 | 816 | 19.52 |
| 17 | g2168.t2 | SMART | SM00055 | fch_2 | 25 | 121 | 3.3E-13 |
| 18 | g2168.t2 | SMART | SM00324 | RhoGAP_3 | 537 | 711 | 5.1E-56 |
| 16 | g2168.t2 | SMART | SM00326 | SH3_2 | 760 | 815 | 1.6E-13 |
| 7 | g2168.t2 | SUPERFAMILY | SSF103657 | BAR/IMD domain-like | 26 | 327 | 2.3E-54 |
| 6 | g2168.t2 | SUPERFAMILY | SSF48350 | GTPase activation domain, GAP | 522 | 714 | 2.55E-51 |
| 8 | g2168.t2 | SUPERFAMILY | SSF50044 | SH3-domain | 760 | 821 | 7.88E-16 |
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:0007165 | signal transduction | BP |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K07526 (SLIT-ROBO Rho GTPase activating protein)
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.
