DreINT0173889 @ danRer10
Intron Retention
Gene
ENSDARG00000079564 | vmhc
Description
ventricular myosin heavy chain [Source:ZFIN;Acc:ZDB-GENE-991123-5]
Coordinates
chr2:24612943-24613898:-
Coord C1 exon
chr2:24613687-24613898
Coord A exon
chr2:24613087-24613686
Coord C2 exon
chr2:24612943-24613086
Length
600 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCTTTCTGTTTTTCTCCCAGACT
3' ss Score
10.43
Exon sequences
Seq C1 exon
ACAAGGCAATCATGGGGGACGCTCAGATGGCAGAGTTTGGAGCAGCAGCTTCTTACCTGCGAAAGTCAGATCGAGAGCGTCTGGAAGCACAAACCCGTCCCTTTGATATGAAAAAGGAGTGTTTTGTGCCTGATCCAGATGAAGAGTATGTAAAAGCTTCAATCGTCAGTCGTGAAGGTGACAAAGTCACTGTACAGACTGAGAAAAGAAAG
Seq A exon
GTAGGCTTGACTAATTAATCATTTTGCCGCTTTAAAGGGTTGGAAATTTTAATTACACCTTTTAAAATTGGTCACTGAAACATTATGAGCACTATGAGGAATTTGTGCATAAGTGCATTAGGTCTTTAGTATTAAAATGTTATTCATTTGTTGTCCTTCGGCTTAGTCTCTTATTTATCAGCGGTCACCACAGCGGAATGAACTGCAAACTTATTCAGCACAGGTTTTATGCAGCAGATGCCCTTCCAACTGCAACCCAGTACTGGAAAACACTCATACACACTTATTCACACATCTACACTACGGGCAATTTATCTTATTCAGTTCACCTATACTGCATGTCTTTGAACTGTGAGGGAAACCGGAGCACACAAACACGGGGAGAACAAACAAACTAACTCAGCCGGGACTCAAACCAGTGACCTTTTTGCTGTGAGGCGACAGTGCTAACCACTGAGCCATAGCGCCGCCATTAAAATGTTAGCTTCTGTATAATTTGTTTTGGAATTCTTTTAAAATATTGTGCACAATAACTCATTTGATGCCACTTTACTTTAAAGTGTTATTTTAATAATTACAATCTTTCTGTTTTTCTCCCAG
Seq C2 exon
ACTGTAACTGTAAAGGAAGCTGACATTCACCCCCAGAACCCTCCAAAGTTTGATAAAATTGAAGACATGGCAATGTTCACCTTCCTTCATGAGCCAGCCGTGCTGTTCAACCTCAAAGAGCGCTATGCAGCATGGATGATCTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079564:ENSDART00000099532:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.134 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0273614=Myosin_N=PU(78.6=49.3)
A:
NA
C2:
PF0273614=Myosin_N=PD(16.7=14.6),PF0006316=Myosin_head=PU(4.1=58.3)
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:
ACAAGGCAATCATGGGGGAC
R:
CTGCATAGCGCTCTTTGAGGT
Band lengths:
342-942
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]