DreINT0099828 @ danRer10
Intron Retention
Gene
ENSDARG00000100972 | myh11b
Description
myosin, heavy chain 11b, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-101124-2]
Coordinates
chr3:36543453-36544354:-
Coord C1 exon
chr3:36544182-36544354
Coord A exon
chr3:36544023-36544181
Coord C2 exon
chr3:36543453-36544022
Length
159 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGTT
5' ss Score
1.87
3' ss Seq
GTATCCTTTATGTTCCTCAGGCG
3' ss Score
7.3
Exon sequences
Seq C1 exon
GCTGAGAAAGCAAATCTTCGAGCAAGGCAGCTGAAGATGCAGATGGAAGAGAGCGATGAAGAATCTCAGCGTGCTACTGCTGCTCGGCGTAAACTTCAGAAAGAGCTGAATGAGGCCATCGAGGCCAACGATGCCCTGAGCAGAGAAGTTTCCTCACTCAGGAGCAAACTCAG
Seq A exon
GTTGTTCTGAAGTGACTCCTTTTTATTGTGTATGTGAAACCAGAATTCCACTGACATTCTCTGTATTGTACAAAGATATAAAATCAGTGGAATAGATAATCACTTTTGAAAATCGTGTTTGGAGACAAGTGGATTCTTAGTATCCTTTATGTTCCTCAG
Seq C2 exon
GCGTGGCAGTGATTCATCCTTCAGCACACCATTAAGGCGTAGCGCTGGTGGAAGCTTTAGACAAGCACGCAGAACCATGATGGAAACGTCAGAGATCCCAGAAGATGGGGGTCCATCTGCTACATCAGTGTGTCAACCTGGGGAACTTCAGATGGAGTCAATCAGCAACACCCAGGATAACAACTAAGAAAACGGATTTCCTTCTCGCTTCATGTTTTTTCCTATTTCTGTGTAATTTATACTTATTTAATCTTGATCATCTCCTACAAAGGAGGATTGGTACTTATGTTTGTTCTTTATGGGTAAAAACTGACTAATTAAAAAGGGTGTGTATGCAGGGTTGTACAAGCAAGCAAATTTATTACCGAGTACCATGGTGCCTCCATGCATTTTGGGCATGAACATCATAAAATAATGGTTAATTAACTCTTTAGCACTAATGACCTTATTCTGCAATACGGAAGTGCACTTGTTTTTGCGATTGTTTTAGTATTAAATATTCTATCAATTAAATCAATTAAAAGTCTATCAATTAAAAGTCATCAACAGCAATAAATAATACACAAGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100972:ENSDART00000166896:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(6.7=100)
A:
NA
C2:
PF0157614=Myosin_tail_1=PD(0.1=1.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAATCTTCGAGCAAGGCA
R:
ATCATGGTTCTGCGTGCTTGT
Band lengths:
246-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]