General information for g10146.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as FERM, ARHGEF and pleckstrin domain-containing protein 2.
Parent gene
- The parent gene g10146 is located on chr_1: 7781300..7782838 (- 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_1 | g10146 | g10146.t7 | TTS | g10146.t7 | 7764202 | 7764202 |
| chr_1 | g10146 | g10146.t7 | isoform | g10146.t7 | 7764333 | 7766206 |
| chr_1 | g10146 | g10146.t7 | exon | g10146.t7.exon1 | 7764333 | 7764650 |
| chr_1 | g10146 | g10146.t7 | cds | g10146.t7.CDS1 | 7764333 | 7764650 |
| chr_1 | g10146 | g10146.t7 | exon | g10146.t7.exon2 | 7764714 | 7764865 |
| chr_1 | g10146 | g10146.t7 | cds | g10146.t7.CDS2 | 7764714 | 7764865 |
| chr_1 | g10146 | g10146.t7 | exon | g10146.t7.exon3 | 7764925 | 7765513 |
| chr_1 | g10146 | g10146.t7 | cds | g10146.t7.CDS3 | 7764925 | 7765513 |
| chr_1 | g10146 | g10146.t7 | exon | g10146.t7.exon4 | 7765837 | 7766142 |
| chr_1 | g10146 | g10146.t7 | cds | g10146.t7.CDS4 | 7765837 | 7766073 |
| chr_1 | g10146 | g10146.t7 | exon | g10146.t7.exon5 | 7766204 | 7766206 |
| chr_1 | g10146 | g10146.t7 | TSS | g10146.t7 | NA | NA |
Sequences
>g10146.t7 Gene=g10146 Length=1368
GTGCGTTATAGAAAAATCTTGGCACCAGAAGACATTGAAAATCTCCAACCACTTTTTGAC
TATTTCGAATCTATGGTGCAACATCATTCAATTTTCTTACGAGACCTCGAACATCGCATA
GTTATGTGGGAATCACGAGGTGATGAAGTTAAAACACGCATTGGTGATGTAATGTTGAAA
AACATGGTTGTGTTACCAATTTATGAAGAGTACTTTGAGTATCATCGCGAAATTCTTCAG
CGACTTAATGACCTCTTCAATGCTGATGAACGTTTTCAACAGATATATAAAGATTTAGAG
CAAGAGAAGGTGTGCTATCTACCACTCTCGACATTCTTGCTAAAACCCTTGCATCGTTTA
TTGCATTATCAGAAGCTTCTTGAATTACTCCTTGAATATTATACCGATGAAAATGAGGAT
AAAACAGATGTACAGGGCTCATTAGTCATGCTCTCACGTACAAATGAGTTAATTAGAGAG
CAAATTGTTGAGACAGAAAACTTTGTTTTGCTCTGCGAAATTCAACGTGATTTGAGCGGT
TTTGATTGTTTAGTACAGGATGACAGAAAACTCATACGTCAGGGTTGTTTGTTGAAGCAT
TCACGTAGAGGATTGCAGCAACGTATGTTTTTCCTCTTTACTGATGTTTTGGTTTATGCA
AGCAAGCCACAATTTTTACAAACCTTCAAAGTACTTGGTCATGTTCCAGTCCGATCACTA
CTTACTGAAAATGGGGAACATAATAGTTTTACTATCTTCGCTGGTGGCATCAACTGGACT
TTGTCTGCTGGAACTACTTATGAGAAAACTATTTGGATGGAAGAATTACAGCAAGCAGCA
ACAAATCTTAAATATAAATCTCCACAACTTACTGGTTTTAGTGGAATTAAATGCTGCACA
TCATCTGAAGAAGGTTTAGAAATGTGTGGATTAAATGCAATGGCACCAACTAATATTAAA
ACTCCAGTTTCTCGCAATAATACCTCATTACATGTATGCTGGCACAGAGGAATAACTGTC
AGTCTAGAAGATCATATAAAATCATCTGAAAGTCAAATTTCAGGATATCTTTTGAGAAAA
TTCAAAAATTCATCAGGATGGCAAAAACTTTGGGTGGTCTTAACTCAGTTTTGTTTGTTC
TTCTACAAGAGCTATCAAGATGAAATTCCATTAGCATCATTGCCACTTCTTGGTTATTAC
GTTGGACCACCATCAGCTCAAGACGCAGTCCAAAAAGACTTTGTATTCAAATTATCATTC
AAAAATCACACATATTTCTTTAGAACAGAAAGTGAAATTAGTTATCAGCGATGGCTGGAA
AATTTAAAAGGCATTTGCATGAGTAATCAAAAATTTGTACGATCATAA
>g10146.t7 Gene=g10146 Length=431
MVQHHSIFLRDLEHRIVMWESRGDEVKTRIGDVMLKNMVVLPIYEEYFEYHREILQRLND
LFNADERFQQIYKDLEQEKVCYLPLSTFLLKPLHRLLHYQKLLELLLEYYTDENEDKTDV
QGSLVMLSRTNELIREQIVETENFVLLCEIQRDLSGFDCLVQDDRKLIRQGCLLKHSRRG
LQQRMFFLFTDVLVYASKPQFLQTFKVLGHVPVRSLLTENGEHNSFTIFAGGINWTLSAG
TTYEKTIWMEELQQAATNLKYKSPQLTGFSGIKCCTSSEEGLEMCGLNAMAPTNIKTPVS
RNNTSLHVCWHRGITVSLEDHIKSSESQISGYLLRKFKNSSGWQKLWVVLTQFCLFFYKS
YQDEIPLASLPLLGYYVGPPSAQDAVQKDFVFKLSFKNHTYFFRTESEISYQRWLENLKG
ICMSNQKFVRS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g10146.t7 | CDD | cd13235 | PH2_FARP1-like | 325 | 419 | 0.000 |
| 11 | g10146.t7 | Gene3D | G3DSA:1.20.900.10 | - | 1 | 147 | 0.000 |
| 10 | g10146.t7 | Gene3D | G3DSA:2.30.29.30 | - | 325 | 424 | 0.000 |
| 3 | g10146.t7 | PANTHER | PTHR45858 | FERM DOMAIN CONTAINING PROTEIN | 2 | 425 | 0.000 |
| 4 | g10146.t7 | PANTHER | PTHR45858:SF4 | FERM, ARHGEF AND PLECKSTRIN DOMAIN-CONTAINING PROTEIN 2 | 2 | 425 | 0.000 |
| 1 | g10146.t7 | Pfam | PF00621 | RhoGEF domain | 3 | 133 | 0.000 |
| 2 | g10146.t7 | Pfam | PF00169 | PH domain | 329 | 422 | 0.000 |
| 12 | g10146.t7 | ProSiteProfiles | PS50010 | Dbl homology (DH) domain profile. | 1 | 137 | 19.016 |
| 14 | g10146.t7 | ProSiteProfiles | PS50003 | PH domain profile. | 166 | 257 | 10.351 |
| 13 | g10146.t7 | ProSiteProfiles | PS50003 | PH domain profile. | 326 | 423 | 13.733 |
| 8 | g10146.t7 | SMART | SM00233 | PH_update | 167 | 259 | 0.000 |
| 9 | g10146.t7 | SMART | SM00233 | PH_update | 327 | 425 | 0.000 |
| 7 | g10146.t7 | SUPERFAMILY | SSF48065 | DBL homology domain (DH-domain) | 2 | 157 | 0.000 |
| 6 | g10146.t7 | SUPERFAMILY | SSF50729 | PH domain-like | 144 | 258 | 0.000 |
| 5 | g10146.t7 | SUPERFAMILY | SSF50729 | PH domain-like | 297 | 421 | 0.000 |
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:0005085 | guanyl-nucleotide exchange factor activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
