General information for g10146.t6
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.t6 | TTS | g10146.t6 | 7764202 | 7764202 |
| chr_1 | g10146 | g10146.t6 | isoform | g10146.t6 | 7764333 | 7765513 |
| chr_1 | g10146 | g10146.t6 | exon | g10146.t6.exon1 | 7764333 | 7764650 |
| chr_1 | g10146 | g10146.t6 | cds | g10146.t6.CDS1 | 7764333 | 7764650 |
| chr_1 | g10146 | g10146.t6 | exon | g10146.t6.exon2 | 7764714 | 7764865 |
| chr_1 | g10146 | g10146.t6 | cds | g10146.t6.CDS2 | 7764714 | 7764865 |
| chr_1 | g10146 | g10146.t6 | exon | g10146.t6.exon3 | 7764925 | 7765513 |
| chr_1 | g10146 | g10146.t6 | cds | g10146.t6.CDS3 | 7764925 | 7765375 |
| chr_1 | g10146 | g10146.t6 | TSS | g10146.t6 | NA | NA |
Sequences
>g10146.t6 Gene=g10146 Length=1059
GTGTGCTATCTACCACTCTCGACATTCTTGCTAAAACCCTTGCATCGTTTATTGCATTAT
CAGAAGCTTCTTGAATTACTCCTTGAATATTATACCGATGAAAATGAGGATAAAACAGAT
GTACAGGGCTCATTAGTCATGCTCTCACGTACAAATGAGTTAATTAGAGAGCAAATTGTT
GAGACAGAAAACTTTGTTTTGCTCTGCGAAATTCAACGTGATTTGAGCGGTTTTGATTGT
TTAGTACAGGATGACAGAAAACTCATACGTCAGGGTTGTTTGTTGAAGCATTCACGTAGA
GGATTGCAGCAACGTATGTTTTTCCTCTTTACTGATGTTTTGGTTTATGCAAGCAAGCCA
CAATTTTTACAAACCTTCAAAGTACTTGGTCATGTTCCAGTCCGATCACTACTTACTGAA
AATGGGGAACATAATAGTTTTACTATCTTCGCTGGTGGCATCAACTGGACTTTGTCTGCT
GGAACTACTTATGAGAAAACTATTTGGATGGAAGAATTACAGCAAGCAGCAACAAATCTT
AAATATAAATCTCCACAACTTACTGGTTTTAGTGGAATTAAATGCTGCACATCATCTGAA
GAAGGTTTAGAAATGTGTGGATTAAATGCAATGGCACCAACTAATATTAAAACTCCAGTT
TCTCGCAATAATACCTCATTACATGTATGCTGGCACAGAGGAATAACTGTCAGTCTAGAA
GATCATATAAAATCATCTGAAAGTCAAATTTCAGGATATCTTTTGAGAAAATTCAAAAAT
TCATCAGGATGGCAAAAACTTTGGGTGGTCTTAACTCAGTTTTGTTTGTTCTTCTACAAG
AGCTATCAAGATGAAATTCCATTAGCATCATTGCCACTTCTTGGTTATTACGTTGGACCA
CCATCAGCTCAAGACGCAGTCCAAAAAGACTTTGTATTCAAATTATCATTCAAAAATCAC
ACATATTTCTTTAGAACAGAAAGTGAAATTAGTTATCAGCGATGGCTGGAAAATTTAAAA
GGCATTTGCATGAGTAATCAAAAATTTGTACGATCATAA
>g10146.t6 Gene=g10146 Length=306
MLSRTNELIREQIVETENFVLLCEIQRDLSGFDCLVQDDRKLIRQGCLLKHSRRGLQQRM
FFLFTDVLVYASKPQFLQTFKVLGHVPVRSLLTENGEHNSFTIFAGGINWTLSAGTTYEK
TIWMEELQQAATNLKYKSPQLTGFSGIKCCTSSEEGLEMCGLNAMAPTNIKTPVSRNNTS
LHVCWHRGITVSLEDHIKSSESQISGYLLRKFKNSSGWQKLWVVLTQFCLFFYKSYQDEI
PLASLPLLGYYVGPPSAQDAVQKDFVFKLSFKNHTYFFRTESEISYQRWLENLKGICMSN
QKFVRS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10146.t6 | CDD | cd13235 | PH2_FARP1-like | 200 | 294 | 0.000 |
| 8 | g10146.t6 | Gene3D | G3DSA:2.30.29.30 | - | 200 | 299 | 0.000 |
| 2 | g10146.t6 | PANTHER | PTHR45858 | FERM DOMAIN CONTAINING PROTEIN | 9 | 297 | 0.000 |
| 3 | g10146.t6 | PANTHER | PTHR45858:SF5 | CHONDROCYTE-DERIVED EZRIN-LIKE DOMAIN CONTAINING PROTEIN, ISOFORM G | 9 | 297 | 0.000 |
| 1 | g10146.t6 | Pfam | PF00169 | PH domain | 204 | 297 | 0.000 |
| 9 | g10146.t6 | ProSiteProfiles | PS50003 | PH domain profile. | 41 | 132 | 10.351 |
| 10 | g10146.t6 | ProSiteProfiles | PS50003 | PH domain profile. | 201 | 298 | 13.733 |
| 6 | g10146.t6 | SMART | SM00233 | PH_update | 42 | 134 | 0.000 |
| 7 | g10146.t6 | SMART | SM00233 | PH_update | 202 | 300 | 0.000 |
| 4 | g10146.t6 | SUPERFAMILY | SSF50729 | PH domain-like | 19 | 133 | 0.000 |
| 5 | g10146.t6 | SUPERFAMILY | SSF50729 | PH domain-like | 172 | 296 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
