General information for g11297.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Myosin light chain kinase, smooth muscle.
Parent gene
- The parent gene g11297 is located on chr_1: 15479789..15481929 (+ 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 | g11297 | g11297.t4 | isoform | g11297.t4 | 15473867 | 15481929 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon1 | 15473867 | 15474249 |
| chr_1 | g11297 | g11297.t4 | TSS | g11297.t4 | 15473889 | 15473889 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS1 | 15474216 | 15474249 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon2 | 15480048 | 15480353 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS2 | 15480048 | 15480353 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon3 | 15480414 | 15480544 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS3 | 15480414 | 15480544 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon4 | 15480604 | 15480699 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS4 | 15480604 | 15480699 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon5 | 15480780 | 15480883 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS5 | 15480780 | 15480883 |
| chr_1 | g11297 | g11297.t4 | exon | g11297.t4.exon6 | 15481493 | 15481929 |
| chr_1 | g11297 | g11297.t4 | cds | g11297.t4.CDS6 | 15481493 | 15481784 |
| chr_1 | g11297 | g11297.t4 | TTS | g11297.t4 | 15481995 | 15481995 |
Sequences
>g11297.t4 Gene=g11297 Length=1457
GACGAGAGAAAAATCTCAGTCTCATTCGTAGTTTTGATTTTGTCGTGTGTGAACTTAGTT
TGCATTTTCACGAGCACTTATTTTTAAAATTTATCAAAAGAATTTTTCGCTGATATTTTT
AACGTTGAGAAGAAATGAGTGGATATAAAAAAGAGGAAGTTTGAATAAAAGCAATAAATT
CTTTTGTGAAAAAATATTCAGATTTCAACACATATAAAAACTAATAAATCAATTAGAAAA
AGTGTTAATTGAAAATCATAATTGTGATTTACTTCACATCCGTCTGAGTAAATAAATCAG
CACTCAACTTTTAAAATCGATTTTTACCATCGAGTGCAAAAAAATTAAAATGATCTACGT
CGATGAAAATCTCACTCCAGAAGACGTCAAACCACCATTTGAATATAGAAATGTCACGAT
TAAAACAGATGAGAACCCAGCGGACAAATACAATATCCTCCCAGAATTAGGGAGAGGCAG
CTTTGGAACCGTTTTTCTTTGTAAAGAAAAAGCCTCTGATCTTGAATTGGCAGTAAAAAT
TGTTACATATAAAAAGAAAAAGGAGAAAACAATGATGGAACTAGAAATTGATATTCTCAG
TTCACTTAATCATCCGGCCATTATTTCAATATATGATGCATTCGATTATGGCAATAAATT
ATATTGTTTTATGGAACTTGTTCAAGGAGGTGAATTGTTTGAAAGAGTGATTGATGAGGA
CTTTGTACTTACAGAAAGAGCATGTGCATGTTTTATTCGTCAAATTGTTGAAGCAATTGA
TTATATGCACAGTAAAAGAATAATTCATCTTGACATGAAGCCAGAAAATGTGTTGTGCCT
TTCAAAACAAGGAAACCGAATTAAAATAATTGATTTTGGGTTTGCTCGCAGATATGATCC
ACATAAGCAACTTCAAGTCATGTTTGGAACTGCCGAATTTTCAGCACCTGAAGTAGTAGC
ATTTGAAGAAATTGGACCATGGACAGACATGTGGAGCATTGGAGTGATCTGTTATGTTTT
ATTATCGGGCTTATCACCTTTTGTGGGAGCTGATGATTTTGAGACAATGACCAACGTATC
ATTTGCAAAATATTCATTCGATTATGCCCCCTTTGAAGAGATATCAAGTACAGCTAAAGA
TTTCATTGAAAAATTATTAATTAAGGAGCCAACAAAAAGAATGAAAGCCAAAAATGCACT
AAAGCATGAATGGCTTACACAACTCGATTGTATATCAGAAAGCTCACATAAAGATATTAC
GCTGTCGTTGACAAAAACCAAATTAAAGCGTTATGTAATTTTAAGACGGTAAGTTTAATC
TTTTTATTTTTCTTCATTTATTTTAGCTCTCTGATAATATGACTTATTTTTACAGTTGGA
GAAAGGCAGCACTTTCTGTTATGTTTATTAATAAATTAAACAAATTGAGTAACTCACATT
TACTTAATAGTTGTTAA
>g11297.t4 Gene=g11297 Length=320
MIYVDENLTPEDVKPPFEYRNVTIKTDENPADKYNILPELGRGSFGTVFLCKEKASDLEL
AVKIVTYKKKKEKTMMELEIDILSSLNHPAIISIYDAFDYGNKLYCFMELVQGGELFERV
IDEDFVLTERACACFIRQIVEAIDYMHSKRIIHLDMKPENVLCLSKQGNRIKIIDFGFAR
RYDPHKQLQVMFGTAEFSAPEVVAFEEIGPWTDMWSIGVICYVLLSGLSPFVGADDFETM
TNVSFAKYSFDYAPFEEISSTAKDFIEKLLIKEPTKRMKAKNALKHEWLTQLDCISESSH
KDITLSLTKTKLKRYVILRR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11297.t4 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 34 | 113 | 7.1E-87 |
| 6 | g11297.t4 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 114 | 295 | 7.1E-87 |
| 2 | g11297.t4 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 16 | 298 | 3.6E-129 |
| 3 | g11297.t4 | PANTHER | PTHR24347:SF393 | MYOSIN, LIGHT CHAIN KINASE 5 | 16 | 298 | 3.6E-129 |
| 7 | g11297.t4 | PIRSF | PIRSF000654 | ILK | 3 | 309 | 3.4E-21 |
| 1 | g11297.t4 | Pfam | PF00069 | Protein kinase domain | 34 | 289 | 2.0E-69 |
| 9 | g11297.t4 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 40 | 63 | - |
| 8 | g11297.t4 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 151 | 163 | - |
| 11 | g11297.t4 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 34 | 289 | 46.76 |
| 10 | g11297.t4 | SMART | SM00220 | serkin_6 | 34 | 289 | 5.8E-85 |
| 4 | g11297.t4 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 14 | 297 | 6.88E-82 |
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:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K00907 (myosin-light-chain kinase)
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. There were no conditions that were differentially expressed