DreINT0100922 @ danRer10
Intron Retention
Gene
ENSDARG00000104235 | myo5c
Description
myosin VC [Source:ZFIN;Acc:ZDB-GENE-131127-196]
Coordinates
chr25:4678094-4679631:+
Coord C1 exon
chr25:4678094-4678205
Coord A exon
chr25:4678206-4679419
Coord C2 exon
chr25:4679420-4679631
Length
1214 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGA
5' ss Score
4.07
3' ss Seq
TCTCTTCTGCTCCATTTCAGGAC
3' ss Score
11.89
Exon sequences
Seq C1 exon
GTGGACGTACGTTGAGTTTTACAGCCGTTACAGTATCCTGATGAGCCAGTCGGAGCTGAAGCTGGGAGAGAAGAAGCAGACGTGCAGGACGGTTCTTCAGAGACTCATTCCT
Seq A exon
GTAAGAAAAGCAGACTCTTGTAGATCTAAAAGTTTAATCGCGTAATCACAACAGAGACATATCGCATGCGCATGACAAAGACATGCATGTTGTGTGCGCACAACATAGACATATACATATCGCGTGCGCATGACATATGTAATGCATATAAAGACATAGACATACATATTATGAGCACACAACATAGACATACATATCGTGTGCACAAGACGTGTGTGTTACATTCCGGTTCACTACTGGTGTGTGGTACATTCTACGTCACTTCCGGGGTGTGGTACATTCCCTTTCCGCAGGGAATCTGTAATTGTAAATTTGTTTCGGGATTTGTAAAAGTGTTTTGCGTCTTGTTAATTTGTTTCGGGATTTGTAAAAGTGTTTTGCGTCTTGTTAATTTGTTTTCTAATATGTAAATTTGTTTCGTCCTTTGTAAAATTGTTTTTCCTATGTAATTGTGTCTGATGATAAGTAAAAATGTTTTTCAAAATATAAATTTGCCTCGAGCTTTCAAACTTTGTAATGTTGTTTTGCACTTCCCGGCCACCGTAGTATTGCGTGCACACGACCTACGCATGGCGTGCGCATGAAATACAAATAGCGTAAACAACTTAGACATACATATCGTGTGCGCACAACATACATGCACGCAAAAAAAAAAGTTCTGAAAAAAAATATATATTTTTTTCGATTTCTAGTGACGAGAATTATGTTTTAGTTTATTGTTTTTTTTTTTTTTTTGGATTTTCGTTAACATAAACGTTCATTGACCAATATTCGTAGTTTTTGTTTAAATTTTTGCTTACTAAAATAACCTTGCAGGCGACGCAGTGGCGCAGTAGGTAGTGCTGACACCTCACAGCATGAAGGTCGCTGGTTCGAGCCTCGGCTCAGTTGGCGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTCGCGTGGGTTTCCTCCGGGTGCTCCGGTTTCCCCCACAAGTCCAAACACATGCGCTAGAGGTGAATTGGGTAGGCTAAATTGTCCGTAGTGTATGAGTGTGTGTGTGGATGTTTTACAGAGATGGGTTGCGGCTGGAAGGGCATCCGCTGCGTAAAAACGTGCTGGATTAGTTGGCGGTTCATTCCGCTGTGGTGACCCCGGATTAATAAAGGGACTCAGCCAACAAGAAAATGAATGAATAAAAATAACGTTGCTTTGAACAAAATCTCTTCTGCTCCATTTCAG
Seq C2 exon
GACTCCAATCAGTACAAGTTTGGTCGGACCAAGATCTTCTTCCGGGCCGGGCAGGTGGCGTATCTGGAGAAGCTGCGTTTAGATCATCTGCGAGCGGCTTGTGTGACCATCCAGAAGCACGTGAGGGGCTGGAGACAAAGACGCAGCTTTCTGAACATCAGACAGGCGGCTCTCATCATACAGCTGTACGTGCGCGGGAAGAAGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104235:ENSDART00000170640:18
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(5.5=100)
A:
NA
C2:
PF0006316=Myosin_head=PD(2.1=19.7),PF0061222=IQ=WD(100=29.6)
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:
CGTACGTTGAGTTTTACAGCCG
R:
CTGATCTGCTTCTTCCCGCG
Band lengths:
319-1533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]