Gene loci information

Transcript annotation

  • This transcript has been annotated as Myosin heavy chain, muscle.

Parent gene

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_2 g5157 g5157.t21 isoform g5157.t21 7349015 7351406
chr_2 g5157 g5157.t21 exon g5157.t21.exon1 7349015 7349395
chr_2 g5157 g5157.t21 cds g5157.t21.CDS1 7349015 7349395
chr_2 g5157 g5157.t21 exon g5157.t21.exon2 7350925 7351068
chr_2 g5157 g5157.t21 cds g5157.t21.CDS2 7350925 7351068
chr_2 g5157 g5157.t21 exon g5157.t21.exon3 7351200 7351406
chr_2 g5157 g5157.t21 cds g5157.t21.CDS3 7351200 7351406
chr_2 g5157 g5157.t21 TSS g5157.t21 NA NA
chr_2 g5157 g5157.t21 TTS g5157.t21 NA NA

Sequences

>g5157.t21 Gene=g5157 Length=732
ATGCCAAAGGTTATCAAGCAAGAAGGTGAAGACCCAGATCCCTCACCATGGTTGTTCGTC
TCACTCGAACAAAAGCGTATCGATCAATCGAAACCATACGATGCCAAGAAAGCCTGCTGG
GTTCCAGATGAAAAGGAGGGCTACGTCTTGGGTGAAATTAAGTCAACCAAGGGAGACTTA
GTCACCGTTTCTGTTCCCGGTGGCGAGGAACGAAATCTGAAACGTGATTTGATTCATCCA
GTCAATCCACCAAAATTCGAAAAAGTCGAGGATATGGCCGATTTGACCCATCTTAATGAA
GGTGCCGTGTTGCATAATCTGCGTCAGCGGTACTATTCTCGACTCATCTATACCTACTCT
GGCCTCTTCTGTATTGTAATCAACCCTTACAAACGTTGGCCATTGTATACCAACCGCGTC
GCTAAAATGTACCGTGGAAAGCGTCGCGCTGAAATGCCACCTCATCTTTTCTCAATTTCT
GACGGTGCCTACGTCAACATGTTGACAGATCATGAAAATCAATCCATGTTGATTACTGGT
GAGTCAGGAGCAGGAAAAACTGAGAACACGAAGAAGGTTATTGCCTACTTCGCCACTATT
GGTGCATCAACCAAGAAATCCGAAAGTGACGAGAAGAAGGGATCACTTGAAGATCAAGTC
GTCCAAACCAATCCCGTACTTGAAGCTTTCGGTAACGCCAAGACCGTCCGTAATGATAAC
TCATCACGTTTC

>g5157.t21 Gene=g5157 Length=244
MPKVIKQEGEDPDPSPWLFVSLEQKRIDQSKPYDAKKACWVPDEKEGYVLGEIKSTKGDL
VTVSVPGGEERNLKRDLIHPVNPPKFEKVEDMADLTHLNEGAVLHNLRQRYYSRLIYTYS
GLFCIVINPYKRWPLYTNRVAKMYRGKRRAEMPPHLFSISDGAYVNMLTDHENQSMLITG
ESGAGKTENTKKVIAYFATIGASTKKSESDEKKGSLEDQVVQTNPVLEAFGNAKTVRNDN
SSRF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g5157.t21 Gene3D G3DSA:2.30.30.360 Myosin S1 fragment 32 82 0.000
10 g5157.t21 Gene3D G3DSA:3.40.850.10 Kinesin 83 244 0.000
3 g5157.t21 PANTHER PTHR45615:SF27 MYOSIN HEAVY CHAIN, MUSCLE 1 244 0.000
4 g5157.t21 PANTHER PTHR45615 MYOSIN HEAVY CHAIN, NON-MUSCLE 1 244 0.000
6 g5157.t21 PRINTS PR00193 Myosin heavy chain signature 117 136 0.000
7 g5157.t21 PRINTS PR00193 Myosin heavy chain signature 173 198 0.000
5 g5157.t21 PRINTS PR00193 Myosin heavy chain signature 225 244 0.000
2 g5157.t21 Pfam PF02736 Myosin N-terminal SH3-like domain 36 74 0.000
1 g5157.t21 Pfam PF00063 Myosin head (motor domain) 89 244 0.000
13 g5157.t21 ProSiteProfiles PS51844 Myosin N-terminal SH3-like domain profile. 34 83 18.571
12 g5157.t21 ProSiteProfiles PS51456 Myosin motor domain profile. 87 244 73.305
9 g5157.t21 SMART SM00242 MYSc_2a 81 244 0.000
8 g5157.t21 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 58 244 0.000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5157/g5157.t21; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5157.t21.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0051015 actin filament binding MF
GO:0005524 ATP binding MF
GO:0016459 myosin complex CC
GO:0003774 cytoskeletal motor activity MF

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