DreINT0100946 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4664722-4666222:+
Coord C1 exon
chr25:4664722-4664866
Coord A exon
chr25:4664867-4666065
Coord C2 exon
chr25:4666066-4666222
Length
1199 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
ATCTTTTGTTCAACTTTCAGGAA
3' ss Score
9.67
Exon sequences
Seq C1 exon
GAATAATTTTGGTGGCTGTCAATCCATATAAGCAGCTTCCCATCTATGGAGATGCAGTCATCCATGCATACTCCGGGCAAAACATGGGCGATCTGGACCCTCATATATTCGCTGTGGCTGAAGAAGCCTACAAACAAATGGCCAG
Seq A exon
GTGATGCAAATTTTATAAATGCTGTTTTGACTTTAAATTAATTTAATAGGAAAAATTATTGTGAGAATGCAAATTCAAAAGTGCTTATGGGAGTTAAAAGTATATAAAAAAAAAATTGGATAATGTTTTGCTAACATTCATACTTGTTTGGGGGGGGGGGGGTGTTAAAATTCATTAGACTATTAGAGGAACTCCATTTTAAGTCTATCATACTCTCTTTGATTTTAAAAAAAAATTCATTTTAAGAGGATTTCTATTGGTTATATTATTTTATTTATGTATGTTATGGAGTATTTCATTTTATTTATATATACTCTATTTGAAACTATTATTTATGAATGTTTTTTTTTCCACTTTTCAAATGTAATTTGTTTACATGTACTAAGATCTTATATATATGAAAAAGTTCCATAAATATTTATTTTAAGAGTCTTCTATTCTAATATTTACATAAATGTTAAAAAAAAGGTTATAGAATGTTAGAGAACAGTCCCTTTTGGGTTACTTTTTTTTATTTATAGTGCGAATCCGAGTATATTGACTACTGCAAACTTAGTAAATCACAACGAATAACTCATTGCAACAAGAAATTACAAATTCTGTCCTTCCATAATTTTTGTATCTGAAAAGAAAACTCGAATGAATGTATGTGCAATAAGGTCAGCTGCAAAAATAACAGTGTTAATGCCGTTTAATCATAGTTTTATTTTTGGATAAATACAAACATTGCAAAAAATGCTTACTTAGATTTTTTTTGTCTTGTTTCTAGTCCAAATATATAAAAATTATTGAATCAAGAAGCATTTTATAGACAGCCAAAACATACTGTCTTGTTTCAAGAAAAAAATATGTCAAGATTTAATGAGTTTTTCCTTAAAATAATCAAAAAAATTAATCTTATGTTAAAAGGAAAAGCCAAATGACTTTGCTTACCCCGTTGGCAGATTATTTAGCTTGTTTTAAGGTAAATCATGCTTAATTTTGGCATATTATTTCTCAAAACAAGACACTCTTTTTCTTGTCTAGAAAATGCTTCTTGATTTAAGATTCTTTAGATAATTGCACTCGAGACAAGACAAAAAATGTAGATAAAGCATTTTTCGCATTGAAGAAATGCAGAATAACCAACAAACTTTATAGGCTGAGCTCAAAATGAGTGAGCTCATATTTTAGTGAAGCATCTTTTGTTCAACTTTCAG
Seq C2 exon
GAATAACAAAAATCAGTCCATCATTGTGAGCGGTGAGTCCGGGGCCGGAAAGACTGTATCTGCTCGCTATGCTATGAGATACTTTGCCATGGTCAGCAAATCCGGCAGCAAAACCCGAGTGGAGGACAAAGTTTTGGCGTCCAATCCGATCACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:4
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=0.003
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=FE(33.6=100)
A:
NA
C2:
PF0006316=Myosin_head=PD(42.7=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATAATTTTGGTGGCTGTCAATCCA
R:
CTCAGTGATCGGATTGGACGC
Band lengths:
302-1501
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]