DreINT0181016 @ danRer10
Intron Retention
Gene
ENSDARG00000027353 | zmym2
Description
zinc finger, MYM-type 2 [Source:ZFIN;Acc:ZDB-GENE-030131-2408]
Coordinates
chr9:21622529-21623038:-
Coord C1 exon
chr9:21622796-21623038
Coord A exon
chr9:21622665-21622795
Coord C2 exon
chr9:21622529-21622664
Length
131 bp
Sequences
Splice sites
5' ss Seq
ATGGTGTGT
5' ss Score
4.84
3' ss Seq
CTTGTACGTGTTTTTCACAGAGC
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTTCTCGGTGGAGTCGTGTTGAAGAGCAATATCTGTGGAGCAGCGGACAGCTTGGAGAACAGGCGCCTTCTGTCCTGCTGAGATCTGTATTCTATCTCAACACCAAATACTTTGGTCTTCGCACCCCAGAACAGCACTTACGCCTCTCATTTGCAAACGTCTATGGCCCAAGCAGCTCGAAACCGCACAGCCATGAGACCACCGTCTGTATACGCATCCCCTCCATCTCACAGGAGCAGCATG
Seq A exon
GTGTGTTTTTCAATTGTAGTTTCGCTTTACTTGTGCATTTTAAATGTCCCAAACTTGTTAGATATTTAAATGTTCAATGTGTTTTACCAGTGTTGCTGTTTGCTGAAATGTCTTGTACGTGTTTTTCACAG
Seq C2 exon
AGCAATCAGGAAGTAAGAGAAGACGTAAAGATTACTGTGACTCAAATTTTGATTCAGACAGCGGTTCAGGGGGATCCGCACACTGTCCTGTTAAGAAGCATGAGTGCCGACTGTATGAGCTTTACCTTTCGAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000027353:ENSDART00000133469:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.391
Domain overlap (PFAM):
C1:
PF120123=DUF3504=PU(46.6=98.8)
A:
NA
C2:
PF120123=DUF3504=FE(25.9=100)
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:
CACCCCAGAACAGCACTTACG
R:
AGCTCATACAGTCGGCACTCA
Band lengths:
243-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]