DreINT0100923 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4679420-4679943:+
Coord C1 exon
chr25:4679420-4679631
Coord A exon
chr25:4679632-4679777
Coord C2 exon
chr25:4679778-4679943
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACA
5' ss Score
5.49
3' ss Seq
AAATAAACCTTACACCTTAGATG
3' ss Score
3.64
Exon sequences
Seq C1 exon
GACTCCAATCAGTACAAGTTTGGTCGGACCAAGATCTTCTTCCGGGCCGGGCAGGTGGCGTATCTGGAGAAGCTGCGTTTAGATCATCTGCGAGCGGCTTGTGTGACCATCCAGAAGCACGTGAGGGGCTGGAGACAAAGACGCAGCTTTCTGAACATCAGACAGGCGGCTCTCATCATACAGCTGTACGTGCGCGGGAAGAAGCAGATCAG
Seq A exon
GTGACAGTTAAAACTTTCTCTTTTTTCAATTTAATTAAATTTATTTAGCTTTTTTGGGGTATTTAGTATTGACGTACGGATGTAATTCCTGCAATAATTCAATCCTGGCATTGCCATGCAGAAAACAAATAAACCTTACACCTTAG
Seq C2 exon
ATGCACAGTGACAGCTCAGGCGTTGAAGCAGGGCTGGGCTGCAATAGTGATCCAAAGACACTGCCGCGGTTTTCTGGTACGGAGGATTTACCAGCTCGTCCTGAGAGCTGCGGTCACCATACAGGCCTTCACCAGAGGATGGATGGCTCGCAAACGCTACAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:19
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=PD(2.1=19.7),PF0061222=IQ=WD(100=29.6)
A:
NA
C2:
PF0061222=IQ=WD(100=37.5),PF0061222=IQ=WD(100=37.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCATCCAGAAGCACGTGAG
R:
AGCCATCCATCCTCTGGTGAA
Band lengths:
256-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]