DreINT0099806 @ danRer10
Intron Retention
Gene
ENSDARG00000100972 | myh11b
Description
myosin, heavy chain 11b, smooth muscle [Source:ZFIN;Acc:ZDB-GENE-101124-2]
Coordinates
chr3:36551258-36551565:-
Coord C1 exon
chr3:36551457-36551565
Coord A exon
chr3:36551390-36551456
Coord C2 exon
chr3:36551258-36551389
Length
67 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
CAGTTTATTTTCTCCTTTAGGTC
3' ss Score
10.82
Exon sequences
Seq C1 exon
GGCATTCAGCAACAAACAAAAGCAGTTGACAGCCATGAAAGTGCTACAGAGGAACTGTGCTGTTTATCTGACACTCAGGAACTGGCAGTGGTGGAGACTTTTCACTAAA
Seq A exon
GTAAGTGTAAAACCCAGCTACACATTATCCATGTATGCTCAAGTACTCAGTTTATTTTCTCCTTTAG
Seq C2 exon
GTCAAACCCCTGCTTCAGGTGACTCGTCAAGAAGAGGAGATGAATCAAATAGAAGAGGAGCTCCAGAAAGCCAAAGAAATTGCCCAGAAGTCTGAAACGGAACTAAAGGAGATCACACAGAAACACGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100972:ENSDART00000166896:18
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=0.364
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0157614=Myosin_tail_1=PU(13.0=79.5)
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:
AGCCATGAAAGTGCTACAGAGG
R:
CCGTTTCAGACTTCTGGGCAA
Band lengths:
179-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]