General information for g13953.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Myosin light chain kinase, smooth muscle.
Parent gene
- The parent gene g13953 is located on chr_1: 33586738..33590149 (+ 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 | g13953 | g13953.t3 | isoform | g13953.t3 | 33579346 | 33585953 |
| chr_1 | g13953 | g13953.t3 | exon | g13953.t3.exon1 | 33579346 | 33579880 |
| chr_1 | g13953 | g13953.t3 | TSS | g13953.t3 | 33579361 | 33579361 |
| chr_1 | g13953 | g13953.t3 | exon | g13953.t3.exon2 | 33580694 | 33581284 |
| chr_1 | g13953 | g13953.t3 | cds | g13953.t3.CDS1 | 33581251 | 33581284 |
| chr_1 | g13953 | g13953.t3 | exon | g13953.t3.exon3 | 33585602 | 33585692 |
| chr_1 | g13953 | g13953.t3 | cds | g13953.t3.CDS2 | 33585602 | 33585692 |
| chr_1 | g13953 | g13953.t3 | exon | g13953.t3.exon4 | 33585750 | 33585953 |
| chr_1 | g13953 | g13953.t3 | cds | g13953.t3.CDS3 | 33585750 | 33585951 |
| chr_1 | g13953 | g13953.t3 | TTS | g13953.t3 | NA | NA |
Sequences
>g13953.t3 Gene=g13953 Length=1421
GCCCGCTCGCTTATTCAGTCGAACACGAGATTTTCATGAGTCGAAAGATTATTTCTTTTC
GTTCATCTCAACCGTGAATTTGAAATATTTTTCTGTGAAGAAAGAAAAGTTGGAAAAATC
TGGTTTTATTATTTACCTAGTTTTTTATGGGATTTTTAATTAAGATTTTTGTGTCTGTGC
ATTTCAATACTACTCTCAATAAGATATAGAGAGAAAGAAATAGTCTAAGCTGATATAAAT
TTCTATAGTTCGCTTTTAAACGTGAAAATTGTGTGAGTTGAATAAAATTAATTAAACGAG
TGTTCTTGGAATAAAGAAAAGAAGAAGAATCTGTTTTTTTACTCATCCCAAATAAAATGC
AATTTAATTGAAAACTGTTGCAAAATGGAAGAATAATAACATGATTTAATTGTGATTTTC
ACTCTTAGAAAACATTAATAAGAAAAGTTCTTATTTTTTGACGAATGCATTTTAATGAGT
GATGAAGTCGAGACAGAATAGAAAAATTTTCTGTAAATGATATGAATAGTAAAATTTAAA
TAAAAAATATTGTATAAAAAGCACGAGCAGTGCATTCATTTAGAAGCTGATTTTGACGTC
AAGCGTAGAAATAATATTGTGTTTGATATATCAAATGAATGGAAAGAGTTATAACAGTAA
CAGTGAAGTGAACATTAACTTTTAATGACATTCAGGAAGTGCCGGCTTTCAGAAAAATCT
CAAGTGGAAAAATTTTTCCTCTTTAATTTACTTCGTGAGTAGTGAAATCAGAGCATGACA
AAGTTTCAAGTGAATACAAAGTAATACAACTAACTAATTGTACGAAAAAACTCACTGTCT
CTCGAGTATACGAGTGTAGTGTAGTAAAATATTGAGGGTCATCAGAAAGGTGAAAAACAA
GAGACGCCGATAAAAATAAGCAGAAATCTATCGTAAGAAAGCGAGAAAGAAATAAATTGT
AACAAGTGAAAAGAAAAAAAAAACAGTTGATTTTTTAAACCAAGTGCGGAAAAGTAATTT
TAAACAAAAACACTCTTCATTAGCAGTCAAATCATCGTGATTACGTCAATTGGTTATAAA
CACACACTCAAGATGATTAAAGTTGATGAAACGGATCCTGTGGGAGATATTGAGCCGCAA
TTTCCCTATCGTCAAGTGAGCGTAAAACGAGGCGTCGATATAAAAGAATTCTATGATTTA
AAAGAGGAAATCGGAAGAGGAAAATTCGGAACAGTTTACAAATGCAAAGAAAAATCAACT
GGATTATGTTTAGCGGCAAAATTTATTTCAGTGCCAAATCGAAAAGAAAGAAAAAATGTT
GAAAGTGAATTGGACATGATGAATCGTCTACAACATCCAAAAATCATTCAACTATACGAT
GCCTATGAATTCAACAAGACTGTCTGTGTGGTACTAGAATT
>g13953.t3 Gene=g13953 Length=109
MIKVDETDPVGDIEPQFPYRQVSVKRGVDIKEFYDLKEEIGRGKFGTVYKCKEKSTGLCL
AAKFISVPNRKERKNVESELDMMNRLQHPKIIQLYDAYEFNKTVCVVLE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13953.t3 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 2 | 109 | 1.0E-30 |
| 2 | g13953.t3 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 16 | 109 | 1.4E-32 |
| 3 | g13953.t3 | PANTHER | PTHR24347:SF393 | MYOSIN, LIGHT CHAIN KINASE 5 | 16 | 109 | 1.4E-32 |
| 1 | g13953.t3 | Pfam | PF00069 | Protein kinase domain | 34 | 109 | 9.3E-18 |
| 5 | g13953.t3 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 40 | 63 | - |
| 7 | g13953.t3 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 34 | 109 | 15.524 |
| 4 | g13953.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 109 | 1.97E-21 |
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 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. There were no conditions that were differentially expressed