DreINT0100925 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4679778-4680176:+
Coord C1 exon
chr25:4679778-4679943
Coord A exon
chr25:4679944-4680029
Coord C2 exon
chr25:4680030-4680176
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TCTTTTTTGCGTCGTTGTAGATG
3' ss Score
10.16
Exon sequences
Seq C1 exon
ATGCACAGTGACAGCTCAGGCGTTGAAGCAGGGCTGGGCTGCAATAGTGATCCAAAGACACTGCCGCGGTTTTCTGGTACGGAGGATTTACCAGCTCGTCCTGAGAGCTGCGGTCACCATACAGGCCTTCACCAGAGGATGGATGGCTCGCAAACGCTACAAAAAG
Seq A exon
GTAAAATGACTTCTTATTCTTTGTTTAATACCTTATTATTTGATATTGCTCTGTAATGATTATGTGTCTTTTTTGCGTCGTTGTAG
Seq C2 exon
ATGGTGGCAGAACATAAGGCTCTGGTTCTGCAGAAATATGCTCGAGCGTGGCTGGTGCGCCGGCGGTTTCAAACCATGCGGCGGCTGGTCATTAATGTTCAGCTATCATACAGAGTCCAGCAGCTGCGTAAGAAAGTAGAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:20
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:
PF0061222=IQ=WD(100=37.5),PF0061222=IQ=WD(100=37.5)
A:
NA
C2:
PF0061222=IQ=WD(100=42.9)
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:
TCACCATACAGGCCTTCACCA
R:
GCAGCTGCTGGACTCTGTATG
Band lengths:
180-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]