DreINT0099800 @ danRer10
Intron Retention
Gene
ENSDARG00000100972 | myh11b
Description
myosin, heavy chain 11b, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-101124-2]
Coordinates
chr3:36556045-36556580:-
Coord C1 exon
chr3:36556407-36556580
Coord A exon
chr3:36556160-36556406
Coord C2 exon
chr3:36556045-36556159
Length
247 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
AACAGTTTCATTAAATTTAGGTG
3' ss Score
6.27
Exon sequences
Seq C1 exon
AACAACCCTCCAGGTATTCTTGCTCTGCTTGATGAGGAGTGCTGGTTTCCGAAGGCAACTGATGTTTCTTTTGTTGAGAAACTCACAAACACTCACTCAAGCCACTGCAAATTCTCCAAACCCAAGAATCTGAAGGAGAAGACTTTCTTCACTGTGCAACACTATGCCGGCAAG
Seq A exon
GTATTTCTATCTACTCAAACAGTCAAAGCATTATATTGCACAGAATGACGGTAAATGTGTTGATAATGGGACAAAAGATTTCTATTTCACATGCAGTTCTTATACATTTTCACAACAGAATCCTAAAAACAATCCTAAAAGAGTATCTATAAGTATCTGTCTGAACAGACGTTTAAAGCAGATGAAGTGGGAAAACAGCACAGATATACTGCCGTTTGTATAATAGTAACAGTTTCATTAAATTTAG
Seq C2 exon
GTGGACTATAATGCCATGTCATGGTTGACTAAAAACATGGACCCACTCAACGACAACGTCACAGCATTGCTGAGCAACTCATCCAGTGCTTTTATTCAGGACATCTGGAAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100972:ENSDART00000166896:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(8.5=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(5.7=100)
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:
CCTCCAGGTATTCTTGCTCTGC
R:
TCCAGATGTCCTGAATAAAAGCACT
Band lengths:
277-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]