DreINT0099804 @ danRer10
Intron Retention
Gene
ENSDARG00000100972 | myh11b
Description
myosin, heavy chain 11b, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-101124-2]
Coordinates
chr3:36553513-36553852:-
Coord C1 exon
chr3:36553783-36553852
Coord A exon
chr3:36553674-36553782
Coord C2 exon
chr3:36553513-36553673
Length
109 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CCCTGTTTTATGAACATCAGATT
3' ss Score
4.19
Exon sequences
Seq C1 exon
CTATGAGGTTCTTGCTGCCGGTTCCATTCCTAAAGGTTTCATGGATGGAAAACAATCCTGTACGCTTATG
Seq A exon
GTGAGTTGAGCAAAATATCTCATTTTACTCTACTGGCAGGGACAATTCAAATGCTATATTAACCTATCTTACCCTTGATGACAATTTCTCCCTGTTTTATGAACATCAG
Seq C2 exon
ATTAAACATCTAGACTTGGACCCAAACCTGTATCGGATTGGTCTGAGCAAGATATTCTTCCGCACAGGAGTGTTGGCACAGCTGGAGGAAGAACGAGACCTGAAACTGACTGATATTATAATAGCCTTCCAGGCCCAGGCCCGTGGTTTTCTTGGCAGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100972:ENSDART00000166896:16
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(3.4=100)
A:
NA
C2:
PF0006316=Myosin_head=PD(3.0=37.0)
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:
CTATGAGGTTCTTGCTGCCGG
R:
TTCTGCCAAGAAAACCACGGG
Band lengths:
230-339
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]