General information for g8190.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Rho guanine nucleotide exchange factor 16.
Parent gene
- The parent gene g8190 is located on chr_2: 28983433..28987846 (- 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 | g8190 | g8190.t1 | TTS | g8190.t1 | 28983150 | 28983150 |
| chr_2 | g8190 | g8190.t1 | isoform | g8190.t1 | 28983433 | 28987846 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon1 | 28983433 | 28983611 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS1 | 28983433 | 28983611 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon2 | 28983673 | 28983880 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS2 | 28983673 | 28983880 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon3 | 28983944 | 28984106 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS3 | 28983944 | 28984106 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon4 | 28984180 | 28984475 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS4 | 28984180 | 28984475 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon5 | 28984543 | 28985416 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS5 | 28984543 | 28985416 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon6 | 28985489 | 28986635 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS6 | 28985489 | 28986635 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon7 | 28987114 | 28987533 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS7 | 28987114 | 28987533 |
| chr_2 | g8190 | g8190.t1 | exon | g8190.t1.exon8 | 28987789 | 28987846 |
| chr_2 | g8190 | g8190.t1 | cds | g8190.t1.CDS8 | 28987789 | 28987846 |
| chr_2 | g8190 | g8190.t1 | TSS | g8190.t1 | NA | NA |
Sequences
>g8190.t1 Gene=g8190 Length=3345
ATGATGTCGAATGTAGCGACCGTGCCAAGACGTCGAAGACCAAAAGAGATCGGTGAAGTC
TTTGTATCGTCAAAATCATGCATTTACATAACGCCGAATGAATCAAAAATCACATCATCC
AATGCCAATCTCGCTAAAGCATCAGAACTACTACCGCTCAGTGAGCCAATTTATGAAAAT
ATTGAGAGAGACGACGATGGAAACAATATTGTGCCATCAGACAATAACAAATTCACCATT
TATGTAAATTATGATTTTATCAAGAAGGGGGAGAAAAAGTGTGGTAAGAGCTCTGTGCGT
CTCCTCGAGCCCGACGTGAAGCTTATGCATACAAACGAAGACGATGACATTTACGGCGAT
AAATTTAAAGATGATTCAAATGGCAATGCAAACAGTGACAATGACAATAATGAGGAAAAT
AATAACAGCAAAAGCATGTCAAAAATGATACAATGTCAGCAAATCTCTATGTATATTGAC
GATTCAGATCATCATTATGAATCACTCTATTCTATTCAACAACAACGTGCCGCATTAGAG
GGAAAATTGGAGAACGATAAACCGTTAAGTCTCGACAATGGAAGTTCCAATCAAAATTAC
TTTATCGATAAATTCGATAATGATGATGATTATAGCTCATTTGATAGTGATGATGATGAA
GAGAGTGGTGGTCGCAATGATGTAGAAGGCGATAAGCAGCAAAATGATATAAAAAATGCA
AAACTACCCGAACCACCAATTTCAAATGCGAGTAGTCAAGTTTATGCTATGGTGCAACGA
TTAAAGAACTTTGGATCAATATCAAAAATTGAAATCACTAAAGGTTTTAGTAAAATTACA
AAGAAACGAACAAGCTTAGGGAAAATACCAACATCAAAGTTTTATGAAACAACAGATATT
GCAGAAGATATCAATGCATCAACACCTGATTATGTTGCACCAAAATACGATAATAAGAGC
ATAAGTAAAAAATCACGCGGCTTATCAAAACTCTCAAAATTGGGCCGTTTAACTATTAAT
AAGCTACCTACTAATTTTAATCTTAGCGAGCCATTCGATCAATCAGACTATCAATCGACG
AAGGGAAATCACAACGAAAGCAATTCTAGTCTTAACAAAATAAGTAGCCAGACATCGGAA
AATGATGTTGAATTTCAGAATCAGAAGAACAACAAGAGTTTCAAGGCAAAATTCCGAAAA
AGCAGCATACCCTCCCTTAGTTCTGCTTCGACTTCAAATATTTATAGTTCATTAGCTAGT
AAAAACAATAGTACCTTTTATGTAACTGACTCATTAGATGTAGATTCTGGAATATTTGCT
GTTAATGAAAAATCTGCAAGCTCGCCTGATAATTCAAATCTTAATTTAAACTCATCATCA
AATTCCAATATCAGTTGTGATCCTAAAAGACGTTCAATAGCGGCAATCACACAAACTAGC
CGTCCTAAAGACTCACCGCCACCTCCACCAATGGAAAAAACTCGTCGCAGTGGTACTACA
TCATGGTATGCTGAATGTGGATTATTCAAAACCGAAAATGAACATGATGAAAAGAGCGAT
AAAATAATTCCGTCATGGTATCATGAAAGTGGTCTTTATCAAACAAGCAATAACTCTGTT
GCAAGCTCAAGCGGTAGTTCTGGCGTTTCAACAGGTGGCGAATGTAGTCCATGTGGTGAT
GAAAATTCTCACAGCATGTTTCTTAATGAACCGCTCTATCAGCTCTACACTGCAGCCAAA
CTTGAATCAATATCATCAAGTGAATTTGAGCCCGAAATTGAATCTGATGGCTATGAAGAA
ATTCATAAAAAAGATTTGCAAGAATTGTCATTTAAAAAACCATCAAGACCATCAGCACTG
CAATTAATTGAACCAAATCATGGGCCTTCAAGAACTCTTTGGTCTGAAGTTCATGAAGTC
ATTCAATCCGGAATTTTATCAACATTACAAGCAAACGAGAAAAAATTACAAGAAGCCAAA
TTCGAAATTTTAACTTCCGAGGCGTCCTATTTAAAGTCATTAAATTTACTCAAATCACAT
TTCATGAATCATCCAGCATTTCGTGATCCACAAATTTTAGATCCGCAAGATCGTAAAATT
CTCTTTTCAAATATTATTCCAGTACAAGAGTGTTCTGATCGATTGTTGTGCGATTTAGAA
AGTTGTTGGCAAGATAGCATAATGCTTAAAAATCTAGCAAAACACATCTTTAAGCATGCT
GAGAAACATTTTCATGTTTACATTTCTTATTGTGAACATCAGGGTAGACTTGATCGAACA
TTGAAGCGACTGAAAGAGACCAACATTCCATTCAAAGAAACTCTCGATTTACTTGAAAAT
GACTCAATTTGCTGCGGTCTCACTATACACTCATTTCTTATGCTTCCAATGCAACGAATA
ACTCGCTTGCCTCTGCTTATAGACGCTGTCATGACCAAGCTCAAGTCCAACGACGAGGAG
TTTGATGATTGGAAAATGGCAATGGCAATTGCAAATAAGATTGTTGATCAGTGCAATCAG
GCGGCGAATCGTTGTGAGCAAGCGTTCGAAATGGAGATGCTTTCTAAACAAATCGAGTTT
CAACAAAATATCACACCATTCCCGCTTATACCATTCAATACAGCTAATGTCGGAAATAAT
AGACTTACACGAACATTAGTGAAACGCGGTGAACTCACACACATCATTTATCGTGGTGAT
GATGCAAAGCTTACATTTGGTAAAAAGGCAACTGTTAAGAAGAACATTTATTGCTTCCTC
TTTACTGATGTGATTCTATTGACAAAGAAAAAAAGTGAAGAATCATATGTGGTGTTCGAC
TACTGCCAAAGGTCTCTACTTCAAGTTTCTTCTGGTGATGTGATTCCACAATTCCCCACA
AAAGACATTAACAATGCTGGAAAGTTCATCATGTTTGTATCATTATTGGAAAATCATTCT
GGAAAACCTGTTGATTTGATACTTGCATGTCCATCAGAGACTGAAAGACAACGATGGCTT
CAAGCAACAACACCACCAACATCAGAAAACCCTTATGAGACACTTTACGAGCAATGGGAT
TGTCCTCAAGTCGTAGTTAAGCATGCATATAAACCAATTGAACCCGATGAGCTTACACTA
GAAGTTGGCGATGTGGTGAACGTTTTACGTAAAATGAAAGATGATGGTTGGTATTATGGT
GAGAGAATTCGTGATGGTACTCAAGGTTGGTTCCCAGGTAATTTCTCTACTGAAGTGCAT
TCAGCTCATGTTCGCGCTAGAAATTTAAAACAACGTCATCGACTTCTTCTATATACTGCC
ACGTATCTCGAATCGCAAAAGGATGCAAATGTAAAACGTAAATAA
>g8190.t1 Gene=g8190 Length=1114
MMSNVATVPRRRRPKEIGEVFVSSKSCIYITPNESKITSSNANLAKASELLPLSEPIYEN
IERDDDGNNIVPSDNNKFTIYVNYDFIKKGEKKCGKSSVRLLEPDVKLMHTNEDDDIYGD
KFKDDSNGNANSDNDNNEENNNSKSMSKMIQCQQISMYIDDSDHHYESLYSIQQQRAALE
GKLENDKPLSLDNGSSNQNYFIDKFDNDDDYSSFDSDDDEESGGRNDVEGDKQQNDIKNA
KLPEPPISNASSQVYAMVQRLKNFGSISKIEITKGFSKITKKRTSLGKIPTSKFYETTDI
AEDINASTPDYVAPKYDNKSISKKSRGLSKLSKLGRLTINKLPTNFNLSEPFDQSDYQST
KGNHNESNSSLNKISSQTSENDVEFQNQKNNKSFKAKFRKSSIPSLSSASTSNIYSSLAS
KNNSTFYVTDSLDVDSGIFAVNEKSASSPDNSNLNLNSSSNSNISCDPKRRSIAAITQTS
RPKDSPPPPPMEKTRRSGTTSWYAECGLFKTENEHDEKSDKIIPSWYHESGLYQTSNNSV
ASSSGSSGVSTGGECSPCGDENSHSMFLNEPLYQLYTAAKLESISSSEFEPEIESDGYEE
IHKKDLQELSFKKPSRPSALQLIEPNHGPSRTLWSEVHEVIQSGILSTLQANEKKLQEAK
FEILTSEASYLKSLNLLKSHFMNHPAFRDPQILDPQDRKILFSNIIPVQECSDRLLCDLE
SCWQDSIMLKNLAKHIFKHAEKHFHVYISYCEHQGRLDRTLKRLKETNIPFKETLDLLEN
DSICCGLTIHSFLMLPMQRITRLPLLIDAVMTKLKSNDEEFDDWKMAMAIANKIVDQCNQ
AANRCEQAFEMEMLSKQIEFQQNITPFPLIPFNTANVGNNRLTRTLVKRGELTHIIYRGD
DAKLTFGKKATVKKNIYCFLFTDVILLTKKKSEESYVVFDYCQRSLLQVSSGDVIPQFPT
KDINNAGKFIMFVSLLENHSGKPVDLILACPSETERQRWLQATTPPTSENPYETLYEQWD
CPQVVVKHAYKPIEPDELTLEVGDVVNVLRKMKDDGWYYGERIRDGTQGWFPGNFSTEVH
SAHVRARNLKQRHRLLLYTATYLESQKDANVKRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g8190.t1 | CDD | cd00160 | RhoGEF | 656 | 839 | 4.81954E-31 |
| 14 | g8190.t1 | CDD | cd01221 | PH_ephexin | 884 | 1010 | 1.92456E-44 |
| 13 | g8190.t1 | CDD | cd11793 | SH3_ephexin1_like | 1023 | 1078 | 3.14762E-29 |
| 12 | g8190.t1 | Gene3D | G3DSA:1.20.900.10 | - | 634 | 859 | 7.8E-47 |
| 11 | g8190.t1 | Gene3D | G3DSA:2.30.29.30 | - | 876 | 1020 | 4.5E-10 |
| 10 | g8190.t1 | Gene3D | G3DSA:2.30.30.40 | SH3 Domains | 1021 | 1082 | 7.4E-19 |
| 20 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 117 | 147 | - |
| 18 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 129 | 147 | - |
| 23 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 212 | 246 | - |
| 22 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 350 | 398 | - |
| 19 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 444 | 498 | - |
| 21 | g8190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 444 | 481 | - |
| 3 | g8190.t1 | PANTHER | PTHR12845 | GUANINE NUCLEOTIDE EXCHANGE FACTOR | 137 | 288 | 2.0E-253 |
| 5 | g8190.t1 | PANTHER | PTHR12845:SF5 | EPHEXIN, ISOFORM D | 137 | 288 | 2.0E-253 |
| 4 | g8190.t1 | PANTHER | PTHR12845 | GUANINE NUCLEOTIDE EXCHANGE FACTOR | 340 | 1110 | 2.0E-253 |
| 6 | g8190.t1 | PANTHER | PTHR12845:SF5 | EPHEXIN, ISOFORM D | 340 | 1110 | 2.0E-253 |
| 2 | g8190.t1 | Pfam | PF00621 | RhoGEF domain | 661 | 839 | 2.9E-33 |
| 1 | g8190.t1 | Pfam | PF00018 | SH3 domain | 1026 | 1072 | 2.2E-11 |
| 24 | g8190.t1 | ProSiteProfiles | PS50010 | Dbl homology (DH) domain profile. | 655 | 841 | 25.967 |
| 25 | g8190.t1 | ProSiteProfiles | PS50002 | Src homology 3 (SH3) domain profile. | 1019 | 1081 | 23.181 |
| 17 | g8190.t1 | SMART | SM00325 | RhoGEF_3 | 659 | 840 | 2.3E-32 |
| 16 | g8190.t1 | SMART | SM00326 | SH3_2 | 1022 | 1080 | 7.4E-18 |
| 8 | g8190.t1 | SUPERFAMILY | SSF48065 | DBL homology domain (DH-domain) | 637 | 859 | 2.36E-47 |
| 7 | g8190.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 882 | 1002 | 7.8E-9 |
| 9 | g8190.t1 | SUPERFAMILY | SSF50044 | SH3-domain | 1014 | 1081 | 1.3E-17 |
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:0005085 | guanyl-nucleotide exchange factor activity | MF |
KEGG
Orthology
- This transcript has been annotated with K07525 (neuronal guanine nucleotide exchange factor)
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.
