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.t18 isoform g5157.t18 7344189 7351406
chr_2 g5157 g5157.t18 exon g5157.t18.exon1 7344189 7344576
chr_2 g5157 g5157.t18 cds g5157.t18.CDS1 7344190 7344576
chr_2 g5157 g5157.t18 exon g5157.t18.exon2 7346722 7346825
chr_2 g5157 g5157.t18 cds g5157.t18.CDS2 7346722 7346825
chr_2 g5157 g5157.t18 exon g5157.t18.exon3 7348795 7348957
chr_2 g5157 g5157.t18 cds g5157.t18.CDS3 7348795 7348957
chr_2 g5157 g5157.t18 exon g5157.t18.exon4 7349015 7349395
chr_2 g5157 g5157.t18 cds g5157.t18.CDS4 7349015 7349395
chr_2 g5157 g5157.t18 exon g5157.t18.exon5 7350925 7351068
chr_2 g5157 g5157.t18 cds g5157.t18.CDS5 7350925 7351068
chr_2 g5157 g5157.t18 exon g5157.t18.exon6 7351200 7351406
chr_2 g5157 g5157.t18 cds g5157.t18.CDS6 7351200 7351406
chr_2 g5157 g5157.t18 TSS g5157.t18 NA NA
chr_2 g5157 g5157.t18 TTS g5157.t18 NA NA

Sequences

>g5157.t18 Gene=g5157 Length=1387
ATGCCAAAGGTTATCAAGCAAGAAGGTGAAGACCCAGATCCCTCACCATGGTTGTTCGTC
TCACTCGAACAAAAGCGTATCGATCAATCGAAACCATACGATGCCAAGAAAGCCTGCTGG
GTTCCAGATGAAAAGGAGGGCTACGTCTTGGGTGAAATTAAGTCAACCAAGGGAGACTTA
GTCACCGTTTCTGTTCCCGGTGGCGAGGAACGAAATCTGAAACGTGATTTGATTCATCCA
GTCAATCCACCAAAATTCGAAAAAGTCGAGGATATGGCCGATTTGACCCATCTTAATGAA
GGTGCCGTGTTGCATAATCTGCGTCAGCGGTACTATTCTCGACTCATCTATACCTACTCT
GGCCTCTTCTGTATTGTAATCAACCCTTACAAACGTTGGCCATTGTATACCAACCGCGTC
GCTAAAATGTACCGTGGAAAGCGTCGCGCTGAAATGCCACCTCATCTTTTCTCAATTTCT
GACGGTGCCTACGTCAACATGTTGACAGATCATGAAAATCAATCCATGTTGATTACTGGT
GAGTCAGGAGCAGGAAAAACTGAGAACACGAAGAAGGTTATTGCCTACTTCGCCACTATT
GGTGCATCAACCAAGAAATCCGAAAGTGACGAGAAGAAGGGATCACTTGAAGATCAAGTC
GTCCAAACCAATCCCGTACTTGAAGCTTTCGGTAACGCCAAGACCGTCCGTAATGATAAC
TCATCACGTTTCGGTAAATTCATCCGTATTCACTTCTCTGGATCGGGTAAATTGTCAGGT
GCTGATATTGAAACCTACTTGTTGGAGAAGGCTCGTGTCATCTCACAACAATCATTGGAA
CGTTCATATCACATCTTCTACCAAATGATGTCAGGCTCAGTTCCAGGTCTTAAAGACATG
TGTATTTTATCCAACAACATTATGGATTATCATATTGTATCCCAGGGCAAAACCACCATC
CCAAATGTTGATGATGGTGAAGAATGTGAACTTACTGATCAAGCCTTCGATGTCTTGGGT
TTCACACAAGAAGAGAAGGACAACATCTACAAGATTGTCGCCGCTGTCATGCATATGGGT
GCTATGCAATTCAAACAAAGAGGTCGCGAAGAACAGGCTGAAGCTGATGGTACTGAAGCT
GGTGAGAAAGTCGCCAAATTGCTCGGTGTTGACACACAAGATCTCTACAAGAACTTGCTT
AAGCCACGTATTAAGGTCGGTAACGAGTTCGTCACACAAGGTCGTAACAAAGATCAAGTA
TACAACTCAGTTGGTGCCCTTTGCAAGGGTGTCTTCGATCGTCTCTTCAAATGGCTCGTC
AAGAAGTGTAACGAAACACTTGACACCAAGCAAAAACGTGTTCACTTCATTGGTGTGTTG
GATATTG

>g5157.t18 Gene=g5157 Length=462
MPKVIKQEGEDPDPSPWLFVSLEQKRIDQSKPYDAKKACWVPDEKEGYVLGEIKSTKGDL
VTVSVPGGEERNLKRDLIHPVNPPKFEKVEDMADLTHLNEGAVLHNLRQRYYSRLIYTYS
GLFCIVINPYKRWPLYTNRVAKMYRGKRRAEMPPHLFSISDGAYVNMLTDHENQSMLITG
ESGAGKTENTKKVIAYFATIGASTKKSESDEKKGSLEDQVVQTNPVLEAFGNAKTVRNDN
SSRFGKFIRIHFSGSGKLSGADIETYLLEKARVISQQSLERSYHIFYQMMSGSVPGLKDM
CILSNNIMDYHIVSQGKTTIPNVDDGEECELTDQAFDVLGFTQEEKDNIYKIVAAVMHMG
AMQFKQRGREEQAEADGTEAGEKVAKLLGVDTQDLYKNLLKPRIKVGNEFVTQGRNKDQV
YNSVGALCKGVFDRLFKWLVKKCNETLDTKQKRVHFIGVLDI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g5157.t18 Gene3D G3DSA:2.30.30.360 Myosin S1 fragment 42 81 0.000
12 g5157.t18 Gene3D G3DSA:3.40.850.10 Kinesin 82 462 0.000
11 g5157.t18 Gene3D G3DSA:1.20.120.720 - 341 448 0.000
3 g5157.t18 PANTHER PTHR45615:SF27 MYOSIN HEAVY CHAIN, MUSCLE 1 462 0.000
4 g5157.t18 PANTHER PTHR45615 MYOSIN HEAVY CHAIN, NON-MUSCLE 1 462 0.000
5 g5157.t18 PRINTS PR00193 Myosin heavy chain signature 117 136 0.000
8 g5157.t18 PRINTS PR00193 Myosin heavy chain signature 173 198 0.000
6 g5157.t18 PRINTS PR00193 Myosin heavy chain signature 225 252 0.000
7 g5157.t18 PRINTS PR00193 Myosin heavy chain signature 456 462 0.000
2 g5157.t18 Pfam PF02736 Myosin N-terminal SH3-like domain 36 74 0.000
1 g5157.t18 Pfam PF00063 Myosin head (motor domain) 89 462 0.000
15 g5157.t18 ProSiteProfiles PS51844 Myosin N-terminal SH3-like domain profile. 34 83 18.571
14 g5157.t18 ProSiteProfiles PS51456 Myosin motor domain profile. 87 462 134.379
10 g5157.t18 SMART SM00242 MYSc_2a 81 462 0.000
9 g5157.t18 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 58 462 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.t18; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5157.t18.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