DreINT0173924 @ danRer10
Intron Retention
Gene
ENSDARG00000079782 | vmhcl
Description
ventricular myosin heavy chain-like [Source:ZFIN;Acc:ZDB-GENE-061027-393]
Coordinates
chr2:24622077-24623036:-
Coord C1 exon
chr2:24622840-24623036
Coord A exon
chr2:24622261-24622839
Coord C2 exon
chr2:24622077-24622260
Length
579 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
ATTTATTTATTTCTACACAGGAA
3' ss Score
8.21
Exon sequences
Seq C1 exon
GCAAAGAATGCTCTTGCTCATGCACTGCAGTCAGCCCGTCATGACACAGATCTGCTCAGAGAGCAGTACGAGGAGGAACAGGAGGCCAAAGCAGAGCTACAGCGAAGCATGTCTAAAGCTAATACTGAGGTGGCACAGTGGAGAACCAAGTACGAAACTGATGCCATCCAGAGAACTGAAGAACTGGAGGAAGCCAA
Seq A exon
GTAAGACATTTCTAAAGACGTTGGGAGATTGGGAAACCACACTCTAAAAGAAACATTGGATGTTTCAGCCACATTTGAATATAATATAGACAAACCCAATAAATTACACCTTTTATCCGACAGTTGGGTTTGTCAACGTTAGACCAAATTTGACTTGAAACAACTCAAAGCATTTTTAGAATACACTAAAACGTCTGGCACATCCTGCAGGTGTTGATCTATAAACAAAATCAGCAGATTTTAATCTCCCTTGCCTGATTTTTGTAGATTTTTTAGCTGTACATTTATTTATCCTCCGAGTCTTTGCGTGGGTTTCCTCCTGGTGCTCGGGTTTCCCCCACAAGTCCAAAGACATGTGATATAGGTGAATTGGGTAAGTTAAATTACCCGTAGTGTATGTTTGTAAATGAGTGTGTATGGATGTTTCCCAGGGATGGGTTGCAGCTGGAAGGGCATGCGCTGCGTAAAACATGCTGCATAAGTTGGCGGTTCATTCCGCTGTGGCAACCCCAGATTAATAAAGGGACTAAACCAAAAAGAAAATGAACGAATAAATAACATTTATTTATTTCTACACAG
Seq C2 exon
GAAGAAACTGGCTCAGCGTTTGCAGGAGGCTGAGGAGGCCGTGGAGGCAGTAAATGCTAAATGCTCTTCTCTTGAGAAGACTAAACACAGACTGCAGAATGAAATAGAAGATTTGATGGTGGATGTGGAGAGATCTAACACTGCTGCTGCTTCTTTAGACAAGAAACAAAGACACTTTGATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079782:ENSDART00000128784:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.848 A=NA C2=0.597
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=FE(7.6=100),PF059116=DUF869=PD(18.0=30.3),PF0003816=Filament=PD(25.0=43.9)
A:
NA
C2:
PF0157614=Myosin_tail_1=FE(7.1=100),PF045827=Reo_sigmaC=PU(32.2=77.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTCATGCACTGCAGTCAG
R:
TCTAAAGAAGCAGCAGCAGTGT
Band lengths:
342-921
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]