DreINT0100921 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4677726-4678205:+
Coord C1 exon
chr25:4677726-4677812
Coord A exon
chr25:4677813-4678093
Coord C2 exon
chr25:4678094-4678205
Length
281 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
GGCTCCATCTATCCTTACAGGTG
3' ss Score
10.11
Exon sequences
Seq C1 exon
GTATGACTCCAGGCGTGTGGTTCAGCAGCTGAGGGCCTGCGGTGTGTTGGAAACCATCCGTATCAGCGCTCAAAGTTACCCATCCAG
Seq A exon
GTAAACACAGGCTTTTCTTCATGTTTATATTAGTTGCAGACATTACAGTTAAAGTCAGAATTATAAGCCCTCCTGTCTATTTTTTTTTCTCCAATTTCTCTTTAACGGAGAGCAGATTTTTTCAACAGATTTCTAAACATAATAGTTTTAATAACTCCTCTCTAATAACTGATTTATTTTATCTTTGCCATGATGACAGCACATAATATTTGACTAGATATTTTTCAGGACACTTCTATACAGCTTAAAGTGACATTTAAAGGCTCCATCTATCCTTACAG
Seq C2 exon
GTGGACGTACGTTGAGTTTTACAGCCGTTACAGTATCCTGATGAGCCAGTCGGAGCTGAAGCTGGGAGAGAAGAAGCAGACGTGCAGGACGGTTCTTCAGAGACTCATTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:17
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(4.3=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(5.5=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:
TATGACTCCAGGCGTGTGGTT
R:
GGAATGAGTCTCTGAAGAACCGT
Band lengths:
197-478
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]