DreINT0173911 @ danRer10
Intron Retention
Gene
ENSDARG00000079782 | vmhcl
Description
ventricular myosin heavy chain-like [Source:ZFIN;Acc:ZDB-GENE-061027-393]
Coordinates
chr2:24625765-24627604:-
Coord C1 exon
chr2:24627531-24627604
Coord A exon
chr2:24625971-24627530
Coord C2 exon
chr2:24625765-24625970
Length
1560 bp
Sequences
Splice sites
5' ss Seq
AGGGTAACC
5' ss Score
5.4
3' ss Seq
GCTATCATGTTTCCTTATAGGAG
3' ss Score
8.56
Exon sequences
Seq C1 exon
CAACGGGTGATGGTGGGAAAAAAGAGAAGAAGAAGAAAGGATCATCATTCCAGACAGTGTCAGCACTTCACAGG
Seq A exon
GTAACCTATCCATGCCTTTAGAGTAAGACAGGGGTCTCAGGGTGCTTTCACACCAGTGTATCGATTCTCTTGTTCCGAAACAGGTATTAAAATTGTTAAAATGTTGCTCTTTGTTCTTGGTGCGGTTCGCTTTCACACGACAAAGTTTCTAAACGGACCAAAAGAACTAAAACAAGTCATGCGCGAGTAAACTCTCGTCACAGTTTCACGGTTTATTTTGATTAGAGTCTTGCTCAGCTGTCATTCGTCCTTATTTTAATTTATGACGATGAGCAATAAGACATTATAGGTGAAAAGCTGCGCTTTCATTTTGATTGTTGACACCCACAGACAAAGTCACCAAATTTAAATCAGTGGTAAGACTTTCTCATACATAGCAGTTAGCTTATGCATTATGTTCTTTACATTATAGAGAGAAATAACTGAAAAATCAACACTGCAGTTTGGTCAATTTTCCTAACGGATAAACAGCTCTTGTTAATATTTTAGCATGCTTTCACTTTCGTATTTGACATGAAACGCACATTTACTGATAAGAATGACATCCCACCCTACTCATAATTCTCTCTTCATATTGCCAAATATGCCTATTACATATCCATAAAACACTGTGATATAGCCGAGCTTGGATCGGATTGCTTTCTCACTACAATCGATCCGCTACAGACTTTGAAGAGTTTGGAGTTCTCATTCAGGTGATCTCGGATCGATTGATCGGAGCGCGATTGCTGGATTTACATATGCCAAACGAACCGCGCTAATTGGGGAAACGAGACCGGTTCCAAAAAAAAAGTCTAGGTGTGATAGAACCCTCAAACTCAAACTGGCGGGGGGCCATATCAGTGACTGACAATTCATAGGAGGGCCATTCTAGCACACAAAAAAAGTGGAAACCTGATGTAATTGATGCACTCAGACATTCTTACCCAGAGTATAAAAGCTCCTTCTTTTTGTTTCTTATTGTACATTTACAAGGGGTAGTTTAAACTGCTATGAAAAACTACAATTTATCAATAGGCATAATAATAATAATAATAATAATAATAATAATAATAATTATTATTATTATTATTATTATTATTATGTCCCAATCAATTGTTGCTTAACCAAAAGTTTAACAGATAGCAAAAAAAAAAAAAAAAAAAACAACAACGCAGAATTCAGTTTGGATACACTGTAAAAAAAAATCTGTTATTTTACTTTTTTTTCCGTCCGCTAGGGTGTAAGTGTAAAATAACGGTCGATAAATTACAAACGTTTACCCTAAAATAATGGACTTTAATGGACTCTTGACAGCACACTGAGAGAAACCGAAAGTAACCCGAATATATAGTACAGTACCTTAAATGTCCAGTAGCTGGGAGGTCAAAACCACAAGTTATATGTGACAGCACAATAATAGTAGTAATTCAAAAATTTTGTTGGGACAAATCTCATTTTATTTTTGACATTAGTTGCAGGCCGAAGGGAGGAGATGGCCCACAGGCCGGCAGTTTGAGACCCCTGTGTTAAGACTTCAAAAAATTTTTATTCTCAATGTGCTATCATGTTTCCTTATAG
Seq C2 exon
GAGAATCTCAACAAATTAATGACAAACCTAAGGTCAACTCACCCTCATTTTGTCCGCTGCCTCATTCCCAATGAGACAAAGACTCCTGGTGCGATGGAGAATCCGTTGGTCATGCATCAGCTGCGCTGTAATGGTGTGCTGGAGGGCATCAGGATTTGCAGGAAGGGCTTCCCCAACAGAATCCTCTATGGGGACTTTAAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079782:ENSDART00000128784:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.720 A=NA C2=0.072
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(3.5=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:
CAACGGGTGATGGTGGGAAAA
R:
TCTGTTTAAAGTCCCCATAGAGGA
Band lengths:
279-1839
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]