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.t13 isoform g5157.t13 7334909 7336305
chr_2 g5157 g5157.t13 exon g5157.t13.exon1 7334909 7335794
chr_2 g5157 g5157.t13 cds g5157.t13.CDS1 7334910 7335563
chr_2 g5157 g5157.t13 exon g5157.t13.exon2 7336096 7336305
chr_2 g5157 g5157.t13 TSS g5157.t13 7336544 7336544
chr_2 g5157 g5157.t13 TTS g5157.t13 NA NA

Sequences

>g5157.t13 Gene=g5157 Length=1096
AAACTTGAAGAGAAGGCACAAAAGGCCCAAGAAGCCTTCGAAAAGGAAGAGAAAGCTCGT
AAGGAATTGGAATCTCTTAATGCCAAATTGTTGGCTGAGAAGACAGCTCTTTTGGACTCA
TTGTCTGGTGAGAAGGGTGCCCTTCAAGATTATCAAGAAAAGTGCGCCAAGATTCAAGCC
CAAAAGAACGATTTGGACAACCAATTGCGTGACACACAAGAGCGATTGGCTTCAGAAGAA
GATGCCCGCAATCAATTGTTCCAAGCCAAAAAGAAGTGCGAACAAGAGATCGCTGGCTTG
AAGAAGGATTTGGAAGACTTGGAACTTTCAATCCAAAAATCAGAGCAAGACAAGTCATCA
AAGGATCACCAAATCCGCAATTTGAATGATGAAATCGCCCATCAGGATGAACTCATCAAC
AAATTGAACAAGGAAAAGAAAATGCAAGGTGAAACCAACCAAAAGACCGCCGAGGAATTG
CAAGCTGCTGAAGACAAAGTCAACCATTTGAACAAAGTCAAGGCCAAGCTTGAACAGACC
CTCGATGAATTGGAGGACTCACTTGAACGTGAGAAGAAACTCCGTGGTGATGTTGAAAAG
AGCAAACGTAAGGTTGAAGGTGACTTGAAACTCACACAAGAGGCTGTTGCTGATTTGGAA
CGCAACAAGAAGGAACTTGAACAAACCATCCAACGTAAGGATAAGGAAATTTCATCACTC
ACCGCCAAATTAGAAGATGAACAATCATTGGTTGGCAAATTGCAAAAACAAATCAAGGAA
CTTCAATCACGCATTGAAGAACTCGAAGAAGAAGTTGAAGCTGAACGTCAAGCTCGTGCC
AAGGCTGAAAAACAACGTGCTGATTTGGCTCGTGAATTGGAAGAATTGGGTGAACGTCTT
GAAGAAGCCGGTGGTGCCACATCAGCTCAAATTGAGCTCAACAAGAAGCGTGAAGCTGAA
TTGGCCAAATTGCGCCGTGATTTGGAAGAAGCCAACATTCAACATGAAGGCACATTGGCC
AACTTACGCAAGAAGCACAATGATGCTGTCGCTGAGATGGCTGAACAAGTTGATCAACTC
AACAAATTGAAGACCA

>g5157.t13 Gene=g5157 Length=218
MQGETNQKTAEELQAAEDKVNHLNKVKAKLEQTLDELEDSLEREKKLRGDVEKSKRKVEG
DLKLTQEAVADLERNKKELEQTIQRKDKEISSLTAKLEDEQSLVGKLQKQIKELQSRIEE
LEEEVEAERQARAKAEKQRADLARELEELGERLEEAGGATSAQIELNKKREAELAKLRRD
LEEANIQHEGTLANLRKKHNDAVAEMAEQVDQLNKLKT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g5157.t13 Coils Coil Coil 6 159 -
8 g5157.t13 Coils Coil Coil 167 218 -
6 g5157.t13 Gene3D G3DSA:1.20.5.1050 - 2 77 1.2E-7
7 g5157.t13 Gene3D G3DSA:1.20.5.1050 - 126 189 4.1E-5
2 g5157.t13 PANTHER PTHR34491 A-TYPE INCLUSION PROTEIN, PUTATIVE-RELATED 4 217 4.6E-87
3 g5157.t13 PANTHER PTHR34491:SF33 MYOSIN-2 4 217 4.6E-87
1 g5157.t13 Pfam PF01576 Myosin tail 10 217 4.6E-42
4 g5157.t13 SUPERFAMILY SSF90257 Myosin rod fragments 4 74 8.89E-16
5 g5157.t13 SUPERFAMILY SSF90257 Myosin rod fragments 69 185 5.75E-8

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5157/g5157.t13; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5157.t13.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016459 myosin complex CC

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