DreINT0181043 @ danRer10
Intron Retention
Gene
ENSDARG00000035823 | zmym4
Description
zinc finger, MYM-type 4 [Source:ZFIN;Acc:ZDB-GENE-030131-5459]
Coordinates
chr19:40523396-40523839:+
Coord C1 exon
chr19:40523396-40523629
Coord A exon
chr19:40523630-40523709
Coord C2 exon
chr19:40523710-40523839
Length
80 bp
Sequences
Splice sites
5' ss Seq
CCGGTCAGT
5' ss Score
7.53
3' ss Seq
TTTGTTTTTGATGAATTTAGACG
3' ss Score
4.47
Exon sequences
Seq C1 exon
GTTATATTCACTCTCGTGTGGAAGAGGAGTATCTGTGGGACTGTAAGCAGCTCGGGGCCTTTTCACCTGGAGTTCTGCTCAACACTTTAATCTATTTCTTCACAAAATACTTTAACTACAGGACAGCGGAGCAGCACCGTCTCCTCTCTTTCGGCCACATCGTGCGCTGCTCTCGGAGCAAAGGCAACACAAAAGTGGCCTGTTTGCGTTTCTATCCTCCGAAAGATGAAGCCG
Seq A exon
GTCAGTCATACTGTCTTTACCTGGTTGTCTATTTGTGTCCTTGTTGTGTGTTATCACTTGTTTGTTTTTGATGAATTTAG
Seq C2 exon
ACGGCGTTCCGGCAAAGAGGAGGAAAGAAGAGGGAGAGGAGGAGGATGAAACTGTATATGAGATAAAGGAGAATTCAGACAATCCTCTCCGCTGTCCTGTCAGGCTCTATGAGTTCTATCTCTCAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000035823:ENSDART00000140926:26
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=0.500
Domain overlap (PFAM):
C1:
PF120123=DUF3504=PU(46.2=98.7)
A:
NA
C2:
PF120123=DUF3504=FE(25.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGAGCAAAGGCAACACAAA
R:
ATAGAGCCTGACAGGACAGCG
Band lengths:
172-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]