DreINT0173880 @ danRer10
Intron Retention
Gene
ENSDARG00000079564 | vmhc
Description
ventricular myosin heavy chain [Source:ZFIN;Acc:ZDB-GENE-991123-5]
Coordinates
chr2:24608182-24608666:-
Coord C1 exon
chr2:24608530-24608666
Coord A exon
chr2:24608438-24608529
Coord C2 exon
chr2:24608182-24608437
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGG
5' ss Score
2.76
3' ss Seq
AAAATGTAACCTCTTCATAGGGA
3' ss Score
5.4
Exon sequences
Seq C1 exon
GTGTTCTTCAAGGCTGGTTTACTCGGTCAGCTTGAAGAAATGAGAGATGACAGACTATCTCTAATTATTTCTGGAATTCAGGCAAGATCCAGAGGACTTCTTGCAAGGGTTGAGTTCCAAAAGATAGTTGAAAGAAG
Seq A exon
GCAAGGATCCTGCATATTCCATATTACCTTACATTTCCATAATTTGCTTGCTGTTGACCTTGGATGATGAAAAAAATGTAACCTCTTCATAG
Seq C2 exon
GGATGCCCTACTGGTTATCCAGTGGAATGTCCGTGCCTTCATGGGGGTGAAAAATTGGCCCTGGATGAAGCTTTTCTTCAAGATAAAACCTCTTCTCAAGTCAGCAGAAGCAGAGAAAGAGATGGCAAATATGAAAGATGAATTTGCCAAGCTCAAAGAGGCTTATGCTAAATCCGAAGCGAGAAGGAAAGAGCTAGAAGAAAAAATGGTGTCTCTTCTCCAAGAGAAGAATGACCTACAACTTCAAGTTCAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079564:ENSDART00000099532:20
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=PD(0.4=6.5)
A:
NA
C2:
PF0157614=Myosin_tail_1=PU(27.7=61.6)
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:
GCTGGTTTACTCGGTCAGCTT
R:
ATGAAGGCACGGACATTCCAC
Band lengths:
167-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]