DreINT0100916 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4673651-4674401:+
Coord C1 exon
chr25:4673651-4673791
Coord A exon
chr25:4673792-4674278
Coord C2 exon
chr25:4674279-4674401
Length
487 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TCTTTTTTGATATCTCGCAGTTC
3' ss Score
8.92
Exon sequences
Seq C1 exon
CACGTGTTTAAACTGGAGCAGGAGGAGTACATGAAGGAGGACATTCCCTGGACGCTGATCGATTTCTACGACAATCAGCCCGTTATTGATCTCATCGAGGCTAAGATGGGCATTCTGGACCTTCTAGATGAGGAGTGTCTG
Seq A exon
GTGAGAAGAAGAATAATGTGGAGAAAATATTCAGTCCTAACTAAAATGAAGAAAGGGATGGTTTATATTTAATTGCATAGCCCCGCCCACACTGTAATCTCATTGGTTTAAAACATATAAATCAAAACCTGAATATTAAGCAGCTGTGTTTTGATTGGCGGTTTTAAAAGATACAACTTCTAAATATATCACAGAAAAAATGTATCAAACATTTAAAATGTCTGTCGGTAAAATATTCTGTCTTAACTGTGATAAAAGAATGTGAAGAAGAGCTGGTTTATATTGTGTTGAGTAGCCCCACCCACATCAAATCATTGGTTCAAAACACCTCCCTGCTGAATATTAAGTAGCTATGTTCCGATTGGCTGTTTTAGAAGATACACATTCTGAAATGCATATAAATTAGATTTTAATAAACAGAATATGATTGATTTGTGTGTATTGTGTTAGTTTGTTTACTAACAAAGTCTTTTTTGATATCTCGCAG
Seq C2 exon
TTCCCGCAAGGCACTGATAAAAACTGGCTGCAAAAACTGTACAATTTTCTAGGCTCAAAGCCGCTGTTTGAGAAGCCTCGTTTGTCTAATGACTCTTTCATGATTCAGCATTTTGCTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:12
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(6.9=100)
A:
NA
C2:
PF0006316=Myosin_head=FE(6.0=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:
ACGTGTTTAAACTGGAGCAGGA
R:
GCAAAATGCTGAATCATGAAAGAGT
Band lengths:
256-743
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]