DreINT0100917 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4674279-4676099:+
Coord C1 exon
chr25:4674279-4674401
Coord A exon
chr25:4674402-4676015
Coord C2 exon
chr25:4676016-4676099
Length
1614 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GCTGAAAGTGTTTTCTTTAGGTA
3' ss Score
4.77
Exon sequences
Seq C1 exon
TTCCCGCAAGGCACTGATAAAAACTGGCTGCAAAAACTGTACAATTTTCTAGGCTCAAAGCCGCTGTTTGAGAAGCCTCGTTTGTCTAATGACTCTTTCATGATTCAGCATTTTGCTGATAAG
Seq A exon
GTGAGAAACTATTCATTTATTTGTTTGTTTGTTTATTTATTAAAAAAAATTAATTGCCATTTGATTGGCAACTCTAAAAATGCATTAAAAATAGTTTGGCAAAACTTTTAAAATTCCAAACCTATTATTTGAAAATTACAAACTTGTTCTGAAACATTGAAACATCAGGGGCTCTATTTTGACGGTCCATGCGCAGAGCGCAAAACGCAGGGCACAAACGCTTTCAGGGCGTGTCAGGACTTTTTTTAAGGACAATTTAAGGACGGGAAATCTGCCTTGCGCTTCAGTGCATGATCTAAAAGGGTTGAGTTTATTTTCTTAATGAGTTATAGGTGTGTTTTGAGAATAAACCAATTAGAGTCTCATCTCCCATTCCCTTTAAGAGTCAGCTGCGTCGCGTCAAGAGCGCATTCGCTATTTACAGAACACAAAGTAAGTCTAAGTGGAAAAACTGAGCATTTCACTAGCAAACAGTTAACAGTTAACAGCTTTTTAACAGAAAACTGTTAAACAGAGCATCTACTGCGTGAGAATGAGAGATAATGGATCACTTTCACTTTCGCTCTTGGATATGGAAACCTTTACGCACAGACATCAATTAGTCTATAAATAATTGATTTCGTTTGTTAGGCGCAAATATTCGTTTTAAAACTATTTCTAAATTCAGTTCTAATTTCCAGCAAACGAATAAATTAATAATAATAACCAAATGTGGTCAAAAATCTGAGTTATATCCTAAAACACATGCTGTGCCCCATATGGTCTAAAACCTGACAGGTGGGCAAATCTAAGCTTGTTTTTAATTAAAGAAATATAAATATGGATATAATAAATAATACTGCTAATAATAATAACATTATACAAAAGCAAATTGTTATGAATGAACTGAAAAAGCCTCCCGAGATGAAGAAGACATAAAAGCAGTGATTTTTCATATTTATGTAGGCTAGAAAATAATATGTTTTGTAATATTTTAATCCTTTATATTTATATTCTATATCTAGTCTTATTATATCCTATATATATCCTTAATATTTACATTTTTTCATATGTAAAGATATTTGCCTATTGCTCTCTTGTGTGTATTAAGCAGTGCGCAAGCGAGGCGCAACTTTGCGCCGGAGTTTAGACCTTGTTAGTTTTGGTCTAATGAAAAATCTAATATAGTTTCTCAAAATAGCAACGTGCCAGCGGTCCGCCTCAGAACGCCTCCCTTTTTAGACCAGAACGCCTATGGGCGCACAAACGAGCGCTAATGCATTTGCTATTTAAACAGCGTAGCGCAACGCCTCAAAACGACTCTTGCGCCAAGCTGAAACTACCAGAAGGTTATTGCGCCGCGCCTTGCGCCACACTGCGCTGGGTGTATGATAGGACCCCAGGAATCAAATAAAAAATTATTATTAACATAATAATAATAATAAATCAATAAATAAAGACATACAATTCAATACACATTTTTTGTACATTGCATTTCACAGCTTTCCAATATGTTTTTTTTTTTAGTTTGTTAATTGTTCTGCTGGAATACAACACGTCTGAACATTAATTAACTAATAATTGACTCTACTGTCTTATTAATGCTAATTAAAGTGCTGAAAGTGTTTTCTTTAG
Seq C2 exon
GTAGAATATCAGTGTAAAGGTTTTTTGGAGAAGAACAGAGACACGCTTTATGAAGAGCTGGTGGATATCATGCGTGCTAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:13
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=FE(6.0=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(4.0=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:
CGCAAGGCACTGATAAAAACTGG
R:
TAGCACGCATGATATCCACCA
Band lengths:
198-1812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]