DreINT0100948 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4666066-4666473:+
Coord C1 exon
chr25:4666066-4666222
Coord A exon
chr25:4666223-4666329
Coord C2 exon
chr25:4666330-4666473
Length
107 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
ATAATCGAATGCGCCTGCAGGCC
3' ss Score
6
Exon sequences
Seq C1 exon
GAATAACAAAAATCAGTCCATCATTGTGAGCGGTGAGTCCGGGGCCGGAAAGACTGTATCTGCTCGCTATGCTATGAGATACTTTGCCATGGTCAGCAAATCCGGCAGCAAAACCCGAGTGGAGGACAAAGTTTTGGCGTCCAATCCGATCACTGAG
Seq A exon
GTAAAATGTTCGAAATCTAAGATCAGATCTTAGAATCATCATACAATTTCTTTTTTACTGATCTTATTATTATTATTATTAATTGGGATAATCGAATGCGCCTGCAG
Seq C2 exon
GCCATTGGAAATGCAAAAACAACCCGAAATGACAACAGCAGTCGATTTGGAAAGTACACTGAGATCAGTTTCGATAAAAGATACCAAATCATTGGTGCCAACATGAGGACGTATCTTCTGGAAAAGTCCAGGGTGGTGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF0006316=Myosin_head=PD(42.7=95.3)
A:
NA
C2:
PF0006316=Myosin_head=FE(7.0=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:
CCATCATTGTGAGCGGTGAGT
R:
CGTCCTCATGTTGGCACCAAT
Band lengths:
251-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]