General information for g10146.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as FERM, ARHGEF and pleckstrin domain-containing protein 1.
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.t10 | isoform | g10146.t10 | 7779171 | 7782838 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon1 | 7779171 | 7779274 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS1 | 7779172 | 7779274 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon2 | 7780018 | 7780092 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS2 | 7780018 | 7780092 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon3 | 7780185 | 7780210 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS3 | 7780185 | 7780210 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon4 | 7780295 | 7780429 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS4 | 7780295 | 7780429 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon5 | 7780505 | 7780748 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS5 | 7780505 | 7780748 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon6 | 7780821 | 7780944 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS6 | 7780821 | 7780944 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon7 | 7781000 | 7781330 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS7 | 7781000 | 7781330 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon8 | 7781396 | 7781918 |
| chr_1 | g10146 | g10146.t10 | cds | g10146.t10.CDS8 | 7781396 | 7781584 |
| chr_1 | g10146 | g10146.t10 | exon | g10146.t10.exon9 | 7782775 | 7782838 |
| chr_1 | g10146 | g10146.t10 | TSS | g10146.t10 | 7782841 | 7782841 |
| chr_1 | g10146 | g10146.t10 | TTS | g10146.t10 | NA | NA |
Sequences
>g10146.t10 Gene=g10146 Length=1626
AGAAGAAAAAAAAGTTTTCGATCAGAATGTAAAATTTCTGTTTTAGTGTTAAAATGCATT
AAAAGGCATCATAATATAAATGTGACATCTAACGATAGCAAAAAGTGTGTGTAGTTGAAA
AAAAAATTAAAAGAAAGTATTAGCTTACTTATGTATCAAATACATGCATATAAAAAATTG
TTGATTTGATAAAAAAGAGAGTGTTGATATATCAAAGTAAAGAGTTTAAATTTTTTTTTG
AAGTGTTAGGAAAAAAGAAGCAAAGCATGAACGTTCTATAGTGAATATATATATTTTAGA
GTGACTGTTACTAATTCAATTTGGTGATTTTCAAAAAATCTTTTTAAAAGCAAAATTTAA
ATAAAAATTTAAGGTGAAGAAAAGAGAAAATTATTATAATGTCATTAAATTCATTGGGCA
CATCAAATACAAATGGACTGCCAAGCAGTCGCATGACACATTCGTTGAGTACACCATCAG
GGGTCGATGGATCGTCTGCTGTCACGCAACATTCGCGAGGTGGTGGAAAAAAGCTCGCAA
TTCGTGTACAAATGTTGGATGATTCAATGACACTCTTTCAAGTTCAGGCAAAGGCACTTG
GAAAAGTTTTATTTGAGCAAGTCTGTCGACAATTGAATCTTCTTGAAGCAGATTATTTTG
GACTTGAATATACAGAAAGTTCGTCAGGCACAAAATATTGGTTGGATTTAGAAAAACCAC
TCAATAGACAAGTTGGTTTCTCGCTCATTGATCCACTTTTGAGATTTTGCGTGAAATTTT
ATGCCAATGATCCAACACAACTCGAAGAAGAGTATACGAGGTATTTGTTTTGTCTACAAA
TCAAGAGGGATTTGGCTACGGGCAGTTTGCAATGTAACGACAATACAGCAGCTTTAATGG
CCAGTTATATCGTGCAAGCCTCTTGTGGTGATTATTCCTTTGAGGACTATCCCGATCACA
CTTATCTATCTTCGTATCGATTTGTACCACAGCAAGATCAAACGCTTCAGCGAAAAATAA
TGGAAAATCATAAAAAGCATATTGGACAATCGCCAGCTGAAGCAGACTTAAATCTTTTGG
AGACTGCAAGACGTTGTGAACTTTATGGCATGAAAATGCATGCAGCCAAAGACCATGAGG
GTGTTCCATTGAACTTATCTGTCGCGCACTTTGGCATTGCTGTTTTTCAGGGCATCACGC
GCATCAATACATTTTCATGGGCTAAAATTCGTAAACTTTCGTTTAAACGTAAAAAGTTTT
TAATAAAACTTCATCCAGAGGGATATGGCTATTACAAAGACATTGTCGAATTTTTCTTTG
AAGGCAGAAATGAATGTAAAAATTTTTGGAAAAAATGTGTTGAAAATCATGGCTTTTTCC
GATGTCAAGCAGTTCAGAGTGCTCCAAGAAGGAAAACAAGAGTTCTCTCTCGAGGAAGTT
CATTTCGTTATAGTGGAAAGACTCAAAAACAAATTATCGAGTTTGTACGTGAAAATTATG
TAAAACGACAAACGTTCCAAAGGTCTCAATCGTTTCGTCAGGGCCCGTTAGCAAGTAAAA
GAAGTCAATCGCAAAATGTTGTTAATACAAGCATCTCAGCACATCCTTTACTTCCCATTG
AGACCG
>g10146.t10 Gene=g10146 Length=409
MSLNSLGTSNTNGLPSSRMTHSLSTPSGVDGSSAVTQHSRGGGKKLAIRVQMLDDSMTLF
QVQAKALGKVLFEQVCRQLNLLEADYFGLEYTESSSGTKYWLDLEKPLNRQVGFSLIDPL
LRFCVKFYANDPTQLEEEYTRYLFCLQIKRDLATGSLQCNDNTAALMASYIVQASCGDYS
FEDYPDHTYLSSYRFVPQQDQTLQRKIMENHKKHIGQSPAEADLNLLETARRCELYGMKM
HAAKDHEGVPLNLSVAHFGIAVFQGITRINTFSWAKIRKLSFKRKKFLIKLHPEGYGYYK
DIVEFFFEGRNECKNFWKKCVENHGFFRCQAVQSAPRRKTRVLSRGSSFRYSGKTQKQII
EFVRENYVKRQTFQRSQSFRQGPLASKRSQSQNVVNTSISAHPLLPIET
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g10146.t10 | CDD | cd17098 | FERM_F1_FARP1_like | 46 | 132 | 1.5587E-42 |
| 20 | g10146.t10 | CDD | cd14473 | FERM_B-lobe | 140 | 233 | 3.96814E-26 |
| 21 | g10146.t10 | CDD | cd13193 | FERM_C_FARP1-like | 228 | 349 | 5.59164E-84 |
| 17 | g10146.t10 | Gene3D | G3DSA:3.10.20.90 | - | 44 | 126 | 5.2E-23 |
| 19 | g10146.t10 | Gene3D | G3DSA:1.20.80.10 | - | 127 | 235 | 1.5E-36 |
| 18 | g10146.t10 | Gene3D | G3DSA:2.30.29.30 | - | 236 | 328 | 1.3E-34 |
| 27 | g10146.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 39 | - |
| 28 | g10146.t10 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 40 | - |
| 5 | g10146.t10 | PANTHER | PTHR45858 | FERM DOMAIN CONTAINING PROTEIN | 7 | 393 | 4.1E-244 |
| 6 | g10146.t10 | PANTHER | PTHR45858:SF5 | CHONDROCYTE-DERIVED EZRIN-LIKE DOMAIN CONTAINING PROTEIN, ISOFORM G | 7 | 393 | 4.1E-244 |
| 13 | g10146.t10 | PRINTS | PR00661 | ERM family signature | 59 | 78 | 2.0E-7 |
| 9 | g10146.t10 | PRINTS | PR00935 | Band 4.1 protein family signature | 79 | 91 | 1.2E-18 |
| 7 | g10146.t10 | PRINTS | PR00935 | Band 4.1 protein family signature | 146 | 159 | 1.2E-18 |
| 11 | g10146.t10 | PRINTS | PR00661 | ERM family signature | 155 | 176 | 2.0E-7 |
| 8 | g10146.t10 | PRINTS | PR00935 | Band 4.1 protein family signature | 159 | 179 | 1.2E-18 |
| 10 | g10146.t10 | PRINTS | PR00935 | Band 4.1 protein family signature | 221 | 237 | 1.2E-18 |
| 12 | g10146.t10 | PRINTS | PR00661 | ERM family signature | 244 | 264 | 2.0E-7 |
| 4 | g10146.t10 | Pfam | PF09379 | FERM N-terminal domain | 50 | 112 | 9.8E-20 |
| 3 | g10146.t10 | Pfam | PF00373 | FERM central domain | 132 | 241 | 4.3E-16 |
| 2 | g10146.t10 | Pfam | PF09380 | FERM C-terminal PH-like domain | 245 | 331 | 2.4E-22 |
| 1 | g10146.t10 | Pfam | PF08736 | FERM adjacent (FA) | 342 | 381 | 7.0E-13 |
| 26 | g10146.t10 | ProSitePatterns | PS00660 | FERM domain signature 1. | 101 | 131 | - |
| 29 | g10146.t10 | ProSiteProfiles | PS50057 | FERM domain profile. | 46 | 331 | 76.596 |
| 25 | g10146.t10 | SMART | SM00295 | B41_5 | 42 | 241 | 2.3E-57 |
| 23 | g10146.t10 | SMART | SM01196 | FERM_C_3 | 245 | 335 | 3.0E-33 |
| 24 | g10146.t10 | SMART | SM01195 | FA_2 | 340 | 386 | 3.3E-15 |
| 15 | g10146.t10 | SUPERFAMILY | SSF54236 | Ubiquitin-like | 48 | 129 | 2.81E-21 |
| 16 | g10146.t10 | SUPERFAMILY | SSF47031 | Second domain of FERM | 131 | 236 | 1.83E-31 |
| 14 | g10146.t10 | SUPERFAMILY | SSF50729 | PH domain-like | 234 | 379 | 4.3E-39 |
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:0005856 | cytoskeleton | CC |
| GO:0008092 | cytoskeletal protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K06082 (FERM, RhoGEF and pleckstrin domain protein 2)
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.
