DreINT0173876 @ danRer10
Intron Retention
Gene
ENSDARG00000079564 | vmhc
Description
ventricular myosin heavy chain [Source:ZFIN;Acc:ZDB-GENE-991123-5]
Coordinates
chr2:24608971-24609355:-
Coord C1 exon
chr2:24609279-24609355
Coord A exon
chr2:24609177-24609278
Coord C2 exon
chr2:24608971-24609176
Length
102 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATT
5' ss Score
6.62
3' ss Seq
ACGTACATTTCTCCCTACAGGAA
3' ss Score
11.41
Exon sequences
Seq C1 exon
ATAATGGTAAGGGAGGTAAAGGAGGTGGAAGTAAGAAGAAGGGCTCCTCCTTCCAGACTGTGTCTGCACTCCACAGG
Seq A exon
GTAATTGTAACTGTTGTGGACATGTTTAAAAAAAAATGTAGGAAACTGAAAATAGTTCTTAATCTCTTTGGTCTTAAATTCCACGTACATTTCTCCCTACAG
Seq C2 exon
GAAAACTTAAATAAGTTAATGACAAACCTAAGGTCAACTCACCCTCATTTTGTGCGCTGCATCATTCCTAATGAGACAAAGACTCCTGGTGCAATGGAGAATCCTTTGGTCATGCATCAGCTGCGCTGTAATGGTGTGCTGGAGGGCATCAGGATTTGCAGGAAGGGCTTCCCCAACAGAATCCTCTATGGGGACTTCAAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079564:ENSDART00000099532:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.731 A=NA C2=0.072
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(3.7=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(10.0=100)
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:
GGGAGGTAAAGGAGGTGGAAGT
R:
GAGGATTCTGTTGGGGAAGCC
Band lengths:
253-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]