DreINT0085324 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21464398-21465696:+
Coord C1 exon
chr14:21464398-21464551
Coord A exon
chr14:21464552-21465580
Coord C2 exon
chr14:21465581-21465696
Length
1029 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
TATGTATTTTCTTTATTTAGGCT
3' ss Score
8.96
Exon sequences
Seq C1 exon
GTTTTCTGGCTGATCCCTCCCACACCTCAGAACCTGGAGCTTTATGAGAACTGGGTGTTGTCTGCTAAACAAGGCGACATCTTTCTTGGGGATAAAGCCTCTATGTGCCAACGGATTGAATTGAAACAAGGCTACACCTTTATGATCCCCTCAG
Seq A exon
GTATGCACATTCTGCAACCGATGACGTTCACTATTAAGTATTCTTTCTCTGACAGTGACACTCACTCAGTCATACTCATTTGGTTTTAGCAGTTTGTTATGGTGGCTCAAAATTCAAGTCTGTCCTGCCACAGTTTCACTTTTATCCCAAGTGGCTCATTTTACAGATGATGCTCAGACTGCCTCTGTGTTTTAGGTTTTGCCAGTTTAAACTTCGGATTAAATGCAAAGCACAGTAGAGAGTTCAATCTTGTTGCTCAGTGCTTATGCTAAATTCTTCTTTTTATTTTTATGCTCTTTAATGGACTGGGTAAATATGTCAAAATGTTAATTTTTAAAACAAAAACAATCATATTTATATTTGTTCTGTTTATTAATCTACATGGTTTAAAACAACAAAAAACTATTTTGTTTATTTTACTACATTTGTTGTTGTGTCAGTAAAACTTGGTTAGGGCATTCGAAACTCTCTACCAGTAGTAAAAATCCTTGCACTGAGCCATGCTTGAGGTTTCAACACTGGCAGATGAATAAATCAATATAAATTTGATTTAATGATGTGGCATTAAATGCAGCATTTCCATGTGTTATCAAAAAAAACATCTGAAAAAAAGGAAAATGTACAGGAATTTAAATTCATATACAAGCAGAAATAAACACAGTAAAGTTTATGAAGGCAACACAGAAAATATATTTGCGGGATCAACACTATTTATTTAACAGATTTTAATGTGCGTTCACATACAGCTCAAGATTGTTCAATAATATATTAAGTTTATTTGAAACATGTTATTTAAAAATGCTTTTAGTGTAAAAGGCTTTTATTTGGAGTAAAAAAAGAAAAAAAACAGGACCTGAACTGGCTTTATTGCATTAGGCAAGTTAACATGGCAACAAAACCAGATCTAAACCAACCGACCATCTTGAGCCTGAAAACTCAGAGTTTTCTCAAACTTAACCTAACCTAACCTGGGCAAAAACTTTGTGCAATAGGCCTTTTCTGTCAAACCTATGTATTTTCTTTATTTAG
Seq C2 exon
GCTGGATCCACGCAGTGTACACTCCAATGGATACTCTGGTGTTTGGGGGCAACTTTCTTCACAGCTTCAACATTCCCATGCAGCTCAATATTTTCAACATTGAGGACCGGACACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:9
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:
PF0237317=JmjC=FE(50.5=100)
A:
NA
C2:
PF0237317=JmjC=PD(17.8=46.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTCTGGCTGATCCCTCCC
R:
TCGTGTCCGGTCCTCAATGTT
Band lengths:
270-1299
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]