General information for g11190.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein kinase PAK 3.
Parent gene
- The parent gene g11190 is located on chr_1: 14497518..14504469 (- 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 | g11190 | g11190.t1 | TTS | g11190.t1 | 14491201 | 14491201 |
| chr_1 | g11190 | g11190.t1 | isoform | g11190.t1 | 14492192 | 14497627 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon1 | 14492192 | 14492275 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS1 | 14492192 | 14492275 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon2 | 14492879 | 14493063 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS2 | 14492879 | 14493063 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon3 | 14493125 | 14493198 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS3 | 14493125 | 14493198 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon4 | 14493261 | 14494108 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS4 | 14493261 | 14494108 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon5 | 14494176 | 14494420 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS5 | 14494176 | 14494420 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon6 | 14494640 | 14494820 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS6 | 14494640 | 14494820 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon7 | 14497304 | 14497455 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS7 | 14497304 | 14497455 |
| chr_1 | g11190 | g11190.t1 | exon | g11190.t1.exon8 | 14497516 | 14497627 |
| chr_1 | g11190 | g11190.t1 | cds | g11190.t1.CDS8 | 14497516 | 14497627 |
| chr_1 | g11190 | g11190.t1 | TSS | g11190.t1 | NA | NA |
Sequences
>g11190.t1 Gene=g11190 Length=1881
ATGTCAAGTGATGAAGATAAACCACCAGCACCGCCTATTAGATTGACAAGCAATCGAAGT
GGAAGTGATAGGCTTGATGGACCACCTCCTGATCTTAAACCACTACCTAAAGAACCCGAC
GATCCAGATCGCAAAAAGAAAACATTAAAAAATAAAATTAAATCGACAAAATCACACAAT
GACTCCAAACCGAATATTTCATATCCAACAAATTTCGAGCATACGGTTCACGTTGGCTTT
GATGCAATCACAGGAGAATTCACAGGAATGCCGGAGCAATGGGCAGTATTATTAATGAAC
AGCAACATCAGTAAAATGGAGCAGAAAAAGAATCCGCAAGCGGTGCTTGATGTGCTCAAC
TGGTTCGACAATAGTTCAAAGCAACGGCCTAGTTCCAAATATATGACACCTGCAGTGCAT
CACAACACCAATACAACTCATTCTGCTTCATCAATAGGTTCGTCGCTGAGTCGCGTAAGC
AGTTCGAGTCCAAGCAGTACACCAACAGATAGTGAATCGCATGTTGGTCATGTAGTCCTG
CAATCGATAAACAACTCCAATCATTCAAATATTCCCACATCAATTTCCATGCAAAACAAC
CACAACATCAGTCATTCAGCACGCAGTTCTGAACAAGAGGAAGAAATTGCGCCACCAATT
GCAAGTCGACCCGAACGAACCAAATCTATTTATACACGTCCAATTGATGACATACCACTG
CAACCACCAATGTCACCGTTACCTCAACCACATATTAATCATAGTATGAAGAGTCCCACG
CTGGATAAGAATAAAAATTCAACGCCAATTATGACACCGACACTACCGGCCATCACAACG
ACAGCTAACAATAATACAGCAACAGTCAATGTCAACACCAGCACTTTAACATCACCAAAT
AATACAATTACAACTAGTGAGCAGCAACCGCAACCGCAAGCACCTCCGCCAATCAATCAA
ACTCGCAGTTCAGCAAAGAAAAAGAAAATGACAGACGAGGAAATTCTCGAGAAGCTACGA
ACGATTGTTAGTGTAGGCGATCCAACGAGAAAGTATGCAAAAATGGAAAAGATCGGTCAA
GGTGCATCGGGAACAGTCTATACAGCCATTGAGAGCTCTACGGGTATGGAAGTAGCTATT
AAACGCATGAACTTAAGTCAGCAACCTAAAAAGGAGCTCATCATAAATGAAATTCTCGTA
ATGCGAGAGAATAAGCATCCAAATGTAGTCAACTATCTTGATAGTTATCTCGTCTCAGAA
GAGCTTTGGGTAGTGATGGAATATTTACCCGGTGGCTCGCTTACCGATGTTGTAACAGAG
ACGTGCATGGATGAGGGACAAATTGCAGCTGTGTGTCGTGAAGTGCTGCAGGCTCTCGAA
TTTTTACATAGCAATCAAGTGATTCATAGAGACATCAAAAGTGACAATATTTTACTTGGT
ATGGATGGTAGCGTTAAGCTAACTGATTTTGGTTTTTGCGCACAAATTTCACCTGAGCAA
TCAAAAAGGACTACAATGGTCGGTACACCATATTGGATGGCACCGGAAGTTGTGACAAGG
AAACAGTATGGACCAAAAGTTGACTTATGGAGTCTTGGAATTATGGCAATTGAAATGATT
GAAGGGGAGCCACCGTATCTGAATGAAAATCCGCTTAGAGCGCTTTATTTGATTGCGACA
CATGGTAAACCAGAAATCAAAGATAAGGATAAATTGAGTCCAGTTTTTCAAGATTTTCTC
GATAAATGCCTTGAGGTTGATGTTGATCAACGATCAAGCGCTATGGAATTACTAAAACAT
CCTTTCTTAAAACTCGCACGTCCATTGGCTAGTCTAACTCCATTAATAATAGCAGCAAAA
GAGGCAACAAAAGGGCACTAA
>g11190.t1 Gene=g11190 Length=626
MSSDEDKPPAPPIRLTSNRSGSDRLDGPPPDLKPLPKEPDDPDRKKKTLKNKIKSTKSHN
DSKPNISYPTNFEHTVHVGFDAITGEFTGMPEQWAVLLMNSNISKMEQKKNPQAVLDVLN
WFDNSSKQRPSSKYMTPAVHHNTNTTHSASSIGSSLSRVSSSSPSSTPTDSESHVGHVVL
QSINNSNHSNIPTSISMQNNHNISHSARSSEQEEEIAPPIASRPERTKSIYTRPIDDIPL
QPPMSPLPQPHINHSMKSPTLDKNKNSTPIMTPTLPAITTTANNNTATVNVNTSTLTSPN
NTITTSEQQPQPQAPPPINQTRSSAKKKKMTDEEILEKLRTIVSVGDPTRKYAKMEKIGQ
GASGTVYTAIESSTGMEVAIKRMNLSQQPKKELIINEILVMRENKHPNVVNYLDSYLVSE
ELWVVMEYLPGGSLTDVVTETCMDEGQIAAVCREVLQALEFLHSNQVIHRDIKSDNILLG
MDGSVKLTDFGFCAQISPEQSKRTTMVGTPYWMAPEVVTRKQYGPKVDLWSLGIMAIEMI
EGEPPYLNENPLRALYLIATHGKPEIKDKDKLSPVFQDFLDKCLEVDVDQRSSAMELLKH
PFLKLARPLASLTPLIIAAKEATKGH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g11190.t1 | CDD | cd01093 | CRIB_PAK_like | 64 | 109 | 5.29245E-22 |
| 9 | g11190.t1 | CDD | cd06647 | STKc_PAK_I | 344 | 604 | 0.0 |
| 8 | g11190.t1 | Gene3D | G3DSA:3.90.810.10 | - | 61 | 139 | 4.5E-30 |
| 6 | g11190.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 288 | 428 | 1.5E-47 |
| 7 | g11190.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 429 | 626 | 1.0E-77 |
| 17 | g11190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 68 | - |
| 18 | g11190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 59 | - |
| 16 | g11190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 143 | 174 | - |
| 15 | g11190.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 301 | 332 | - |
| 3 | g11190.t1 | PANTHER | PTHR48015:SF35 | NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE | 35 | 625 | 6.9E-232 |
| 4 | g11190.t1 | PANTHER | PTHR48015 | SERINE/THREONINE-PROTEIN KINASE TAO | 35 | 625 | 6.9E-232 |
| 1 | g11190.t1 | Pfam | PF00786 | P21-Rho-binding domain | 66 | 120 | 5.2E-22 |
| 2 | g11190.t1 | Pfam | PF00069 | Protein kinase domain | 352 | 603 | 6.8E-76 |
| 12 | g11190.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 358 | 381 | - |
| 11 | g11190.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 467 | 479 | - |
| 19 | g11190.t1 | ProSiteProfiles | PS50108 | CRIB domain profile. | 66 | 79 | 9.933 |
| 20 | g11190.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 352 | 603 | 52.527 |
| 13 | g11190.t1 | SMART | SM00285 | PBD_5 | 66 | 101 | 3.2E-13 |
| 14 | g11190.t1 | SMART | SM00220 | serkin_6 | 352 | 603 | 1.2E-101 |
| 5 | g11190.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 342 | 605 | 3.37E-87 |
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:0005524 | ATP binding | MF |
| GO:0004674 | protein serine/threonine kinase activity | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K04409 (p21-activated kinase 1)
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.
