DreINT0100930 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4683035-4684039:+
Coord C1 exon
chr25:4683035-4683215
Coord A exon
chr25:4683216-4683945
Coord C2 exon
chr25:4683946-4684039
Length
730 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGCG
5' ss Score
2.19
3' ss Seq
ATTTTTTGTATCATTTAAAGGTC
3' ss Score
8.56
Exon sequences
Seq C1 exon
GGTGGCAGAGCACAACAGTGAACTGCAGAAGGAAGACTCGGACAAAGAAATTGTGGCGATAAAAGAGGAAAACCGTAGACTGAGAGAGGAGCGAATCAGACTGCAAACGCAAGTGGAGGAGGACGTGAAGACCAACACAGAACTGCAAGAGCAAATGCTGCAGCTCACCAAACACGTCAAG
Seq A exon
GTGGCGTATATAAAATGACAAGGCTTTAAAACACATTCTAGTAACGATATGAGGATTTTTAAACAGAAACTTAAAATAAAGTCCTTAACCTAGGAGGAGGAGTTCAAGTATTTTGGGGTTTTGTTCACAAGTGAGAGAAGGATGGAGCATGGGATTGACAGGTCGATCAGTACATCGACGTACCGGTCCATTGTGGTAAAGAAGGAGCTGAACCGAAAGGCAAAGCTCTCGATTTACAGGTCAATCTTTGTTCCTACTCTCACCTATGGTCATGAGCTTTGGGTCATGACCTAAAGAACAAGATCTCGAATACAAGCAGCCAAATTAGTTTGGTCTTCGCAGGGTGGCAGGGCGCATCCTTATAGATAGGGTGAGGAGCGGCTTAGGTTCTCCCTGAAGGAGCTGGAGGAAGTGTCTGTCAAGAGGGAAGTCTGGAGTTCTCACCTGTGACCCGACCCCAGAAAAGCAGATGAAAATGAATAAATGAACTTAAAAGACACATTTTTGAGATTCCCTATTATGTTTTTAAGTACTTGTGATGCATTTAAGATTGAAACATGGAATAAATGATACACGAATCAATAAATTTGTGCGTAAATATATAAAACTGAAAAAATTAATCTGAGAACATTTCCAAATAATCCATTCATTAAATGGCAATAAGTAAATGACTTATAGTGCAGATCATTTTTTTAGATATAAATGTTTTTATTTTTTGTATCATTTAAAG
Seq C2 exon
GTCATACCAGATTTACGTAAAGAAATCAACAACCTGCAGATTCAACGAGCTGAAGCTGAAAAAACCCTGAGAGCTCAAAATCTACAAGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.689 A=NA C2=0.312
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGCAGAGCACAACAGTGAACT
R:
TCTGGCTTGTAGATTTTGAGCTCT
Band lengths:
271-1001
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]