DreINT0099810 @ danRer10
Intron Retention
Gene
ENSDARG00000100972 | myh11b
Description
myosin, heavy chain 11b, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-101124-2]
Coordinates
chr3:36549153-36550747:-
Coord C1 exon
chr3:36550610-36550747
Coord A exon
chr3:36549277-36550609
Coord C2 exon
chr3:36549153-36549276
Length
1333 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TATTGTTTTGGCACTTTTAGGAG
3' ss Score
7.42
Exon sequences
Seq C1 exon
GAGTTAGAAAACCATTTGGCAGAACAAGATGCCACCCGACAGAAGCTTCAGTTGGAAAGTGGCGCTGCCGATGGGAAGATTAAGAAACTTGAAGAGGATGTCCTCATCATGGAGGATCAGAAAAACAAGTTGCAAAAG
Seq A exon
GTTTGTATCAAGTTTGACCAGTTTTATTTGGATCATAATCATCCCCATTTGGAAAACAAACATCAGGTATAAACAACAGTGGTTCTACTAATTGGCACTCAATGTTAACCAGTGAAATGATTTTAAACTCTCTGTTGATGATCTCCAAGTGTCTCCCTCTGCCCAGATGTGCAACCTTGCAGTACTTTCTGATGCACAGCTCAGTTTTACCTCACACTTGACAGAAACAGCCTTGTTTTACCTACGTCTTACGAATGAGACGTTAAATCGAGGCCCTATCTGTGGTCATTAAAAATCCATTGCACATCTTGAAAAGGGGTATAACCCCGGTGTCCTGGCTAAATTCCCTCCATCGGCCCTTTCATGGCATCCCATCCACCGAAACGGTCTCTCCACTCTACCAATAGCTGGTGTGTGGTGAGTGCACTGGCGCCGTTGTCCTGTGGCTGCCGTCGCATCATCCAAGTTGATGCAACACACTGGTGGTGGTGTGGAGAGACCCCCCTCTCATTATTGTGAAGCACTTTGGGTGTATGGCCATACACATTAAATGTGCTATGTAAATAAACATTACAATACATTACGTAACATTGCGCCGATCAGACTTTCTATCATGCTTGATGCAGAACATCCATGCCTTTATCACACCATGTCGTGATTTCTGTAACTCACTCTTCGGGGGCCGGAGGTTTAATTTATAATTATTATTTAGGGGGTTTTAACTTGGATAGAATGGATAGAAATGGATAGAAAAGTACAGAGAATTGACAGGAAATAGTTGAGAGCAGAAAAAGGGCAAGGGTCGGCAAAATTGAACTCGGGTCGCTGTGAGCACCATGGTGCTATATGTCGGCGCACTTAACTACTAAGCTATTGGAGCCGACAACAAGCTCTTGCATGAGTTTTAACCCACACTTCCTCGCACCACCATATCACCCCTGTACTTCAGCAACTTCACTGGCTTCCTGTTAAGTCATGTATTGATTTTAAGACCTTAATATTAACATCTAAAGCAGTGCATGGGCTAGCACCTGACTACATTTGAGACCAGGTAATTTTCGCCACTCCCACCCACAGTCTTCATTCTGCATCTAGACTGACTAACCCTGTATCAGCAACGCTGTAAACCTAAGACCATGGGTGGCTATTTCGTATTGTTTGCCAAAGCTATGGAACGGCCTACCCATCTTTTAATTTAGGCTAATTATTTTTTGTCAATTTAATCATTCAGTTTTATTGTTCATGTTTTATTGTAGTTTATTGTAGTTATTAATCATGGTTTATTGGAGTGTTTTTTCTGTTAAATTATTAGCTATTGTTTTGGCACTTTTAG
Seq C2 exon
GAGAAGCAACAGCTGGAGGAGCGGTTAGCTGACTTTAGCTCCAACCTTGCTGAGGAGGAAGAAAAATCTAAAAACCTGACTAAACTAAAGGCTAAACATGAATCTATGATTTCAGATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100972:ENSDART00000166896:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.826 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(16.7=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(15.2=100),PF045827=Reo_sigmaC=PU(25.5=85.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAACCATTTGGCAGAACAAGA
R:
TGAAATCATAGATTCATGTTTAGCCT
Band lengths:
247-1580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]