DreINT0100274 @ danRer10
Intron Retention
Gene
ENSDARG00000017004 | myo10
Description
myosin X [Source:ZFIN;Acc:ZDB-GENE-070912-277]
Coordinates
chr2:42776460-42778610:-
Coord C1 exon
chr2:42777690-42778610
Coord A exon
chr2:42776581-42777689
Coord C2 exon
chr2:42776460-42776580
Length
1109 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TGTGTTTCTCTCTCTCTCAGTTT
3' ss Score
11.55
Exon sequences
Seq C1 exon
GCCGAAGAAGCTCGAAGATTAGAAGAAAAACTAAAAAGCAAACAGACTCAAGTTGTCTTCCCTGAAACCATCACACCAGACAGTATTACAGCAGAGGATAGTCCACAAAAAAGCATCCCGCACGAGAGCCCCATTGAAGAAACATCGCTAGCAGAACAGGTGTCTGACGAAGTGTTCGAAGCAGAAACAAACCAAGCATCGCAGGTGGAGGAAATCCTGCGTCTGGAGCGTGAGATTGAAGGTCTGCGACGCCAGAAAGAGGCCCAGGAGCAGAGTCTGACCACACAGTCGCTGCATCGTCTGCAACGGCTGCGCGATCAGGAGCTGCGCAGGCTGGAGGAAGAGGCCTGTAAAGCAGCGCAGCAGTTCCTCACCTCGCTCAACTTCGACGAAATCGACGAGTGCGTTCGCAACATCGAGAGCTCGCTCGGGGGATCTGGAGGATCACAGCAGGGCTCCCCTAGAGGGGAAGAAGATGAAGTGGATGAAGGTCTGGGAGTGGACGAAGATGGGTTTAAAGATTCTCCAAACCCCAGTGAACATGGTCACTCTGATGGACAGCGAACCAGCGGTATAAGAACCAGCGACGATTCATCAGAAGAGGATCCTTATGCTAATGACCGCGTGGCCCTGCCCCCAGTCCTGCCCCTTATTATGCCCTCAGTTTATCGTGCTCCGCCCTCCAGCAGTGGCTCCACCTATTCTCATGCTGTTCTGGAGGAGGAGACGGAGCTTATCCCTCCCGATGAGGACTCGGATTATGATGCGGACGATTATGATGAAGGAGGTCTGATCATGCGGCCGCCCAGTCTCCCGCCTCATAATGACATCTGGTCACGCGAGAACCGCAGCTCGTTGGCAACAAGTGCCAGTGTGAGTTCAGGCGCGTATCGATTCAGCTCAGATGGCCCACAGTCCTCG
Seq A exon
GTGAGCTTTACATACACACGTTCTGAATAGTTAATGAGAACTGCACTACGCTCCCTTCACACTTGCAGTGACTTTGTAGCTGCTTGTTGCCATGAGGGGCAATTGAAATTGCGAGTGGTCATTCCTACCTTGAGGTTGCTTAGGTAACGTTTATGATGATATTCACTAAGAGCAAAATAAGTTTACGTGCCACTGAAAATAAACCTTGTTTGGAGAAAGCACAAAATATAAGTGGAACGAGTACAAAATGCTTAATTACAGAGATGAACAAGAAAAAAAAAGTGTGTTTTCCATCATTTCGGTTATCTCCTGCAAACGCGGATCTGTGTAGGTCTACAGCACAGAAAATATAGCAGGCTTCAAAAGGAGCTAAGAGAGGATCATGTGAGCTCTACTGATGCTCTTATTGCCTGTTGCTTGCAAAAGTCTCTGTTCATTTGCATAAAGTAGATTGATTCTCCACTTTGTCACATTGCTTGAGATGCTCACATCTGGTCGGCAGTAGCCACTGTCGCCCATGTACCAGAGGTCGCTGAAAGTTGCTCACTCTCCATTGTAATCAATAGTCGCTTGTTGCTGATTGTTGTCGCTCGTAGTATGAATGGGGCATTAAAATGATGAAGCAAAGATGTGTTTTCATAAATCTACGCTAAAAATAAGTGTATTAATGGGTTTTTTCTGAAAAATAGTGAGCAATGATGACCGTGATTTACAGCAGATAGCCATTAAAAAAAGAGTTTATTCCAAAAATAAAATGTACTTATCATTTACTTGCCCTTAAGAGATTCTTATATGAACACAAAAGAAGATATTTGGAAGAATGTGGAAATCAGTAGCTCGTGACTATATACAGTATCTGTAGTAGGAAGAAAAATAGTATGGTAGCCAATAGCTAGTTCTCCAAAGTTCTTCAAATTATCTTCATTTGGGTTTAACAGAAGAATGCAACTCAAACAGGTTTGCCAGAAGTTAACAGTGATCAAATAATGACAGAATTTTCAGTTTTGGGTGAACTATCCCCTGTTGTAAATGACATCTCTCATTTTTAAAAGAGTGAGTTTTTAACTTTGATTGATAATGTTCTATAACTGTGTTTCTCTCTCTCTCAG
Seq C2 exon
TTTGAGGACAGTGAAGATGACTTTGACAGGTTTGACACTGATGATGAATCGTCTTACCGGAGGGACTCAGTCTACAGCTGTGTTACTCTCCCATACTTCCACAGTTTCCTTTATATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017004:ENSDART00000140159:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.749 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0016924=PH=PU(25.0=24.4)
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:
GCCCTCAGTTTATCGTGCTCC
R:
CTGTAGACTGAGTCCCTCCGG
Band lengths:
342-1451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]