DreINT0085308 @ danRer10
Intron Retention
Gene
ENSDARG00000078133 | kdm2ab
Description
lysine (K)-specific demethylase 2Ab [Source:ZFIN;Acc:ZDB-GENE-101007-5]
Coordinates
chr14:21470931-21473062:+
Coord C1 exon
chr14:21470931-21471200
Coord A exon
chr14:21471201-21472930
Coord C2 exon
chr14:21472931-21473062
Length
1730 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
CACTTGTGCTCTGTTTCTAGCCG
3' ss Score
7.82
Exon sequences
Seq C1 exon
CCGTCGTGGTATCAGCCGCCGCCGCCACCTCCTCCGTCTCATCTATACCGGCCACGAACTCCTGGTTCGGGCCCAATGTTGGCACCAGTTCCTCGGCCTGTTAAGCCATCTTCCTCCATCTCGGCTCTGAGACGTAGACGCGTGCGCTGCAAACGCTGTGAGGCCTGTCTGCGCACTGAGTGTGGCAATTGCAACTACTGTAGGGACATGAGGAAGTTTGGAGGACCAGGCAGACTGAAGAAGAGCTGTGTTCTCCGACAGTGTCTTGCA
Seq A exon
GTGAGTTACTGTTTATTTATAATGTCATCAGAGAAACTACTGCTTGTTGTTGTTTTTTTACATTTCGTTGTGTTAGAATTTTTTTTTGTAGTTTATTTTTTATTTAAATGTAATACCTCTACTCTGTAGCAAGGGCTTTAGGGAGTCATTTATAATATTGGAAAATTCAGTCAGTCCAGATGTGCAGTGACCGTTAGATAGAAAAGACCACGGCAGTGCAACAACTGTGGACCCATTCACAAAGAATATGTCTTTGTGTCTGAAAATGTGACTCAGGAGTGGTTCTGCCATTTAACCATTGCCATACCACTTGCTACCCTGTAAAAAGTTATTCTGGTTGGTCCACTGCTCTGAGGATGACAGCATTTATGACAAATGAGTGAAAATCGACATTGTTTTACCTTCACATGGTGACGGTTCCTTAAAAAAAACACTGTTCTCCAAAAAACGAGTAAATAACGAGTCATGTACCTCTGTCAAACAATGGAAAATAAGAGTAAGTATAACTAATAAGTAACTGAGAGCCTTCTCTACACACATGCATAAGAGACACAGTGCTCCATTTTCATTAAAACTGATTTCACTTTTGAAGCTTACTGAATCTAAAATTGAAAACACATTTATTGTTTTTCTGGAGTTTAGCGAGAGGGATTTATATAGATGTATAAAAAAATAAATATAAATATTTTTTTTAAATAAATGCTGCTCTTTAGACTTAGACATTCCTTATGCTGTGTTCACACCAGATGTGGAAGAAGCATTAAGCGTGAGTGATTTACATGTTAAGTCAATGCAAAGTCGCAAACAGACATCCTGTAGCACGATACACGCTAATGACGCAATTTGTGCGAATGAAGCAGCGCGAGTTGAGCATTTGTGCGATTGACGCCCTTAACACGCGTATCGTATGTTTCGCCTGAATCGCTCTAGTTTAAAAATCTGAACTTCAGTGGAGATTCGCGCTGCATTAACCAATCAAGAGCTTATTCTTGTGGGGCGTGATTATGATGTAGTGTCAGAAGTACTGCTTAAAACTTCCATCATTCAGGTTAAGTTTCAGGAGGAGTTTATGAGCTCTCAGAGCAGGGTGCACCTCAGAAAGGATCTAGTGGCTGTTTTTCAGACTTCATAAAGCACATAAGCACAGCTATTCTCTCAATAAAATCAATGTTAGCCATTTAGCAGCGAAGCTAGAGTCACCCGGCAGACAGAAGCCCTGCCCATCACGTGAATCCGCGCCTGTTGTGAAGTGAATTTGACGTGCAAATGAAGCGAGTAAACTAAATGTTCACACGTCTATTTATGCTCGAATAGTGCATTAGAATCAGCAAAATTGGCATATTATAAGGATTTCTAAAGACTTGTGTGGCATGAAAGAGAGGCATAACGATGAATTTTTTTGATTTGTATTACAGGATTTAATTGTATTTTAAACTTGTATTTGTAAACTTTTACAAAGCTAGGGTTTTTGGTCTAACAGATCCTGTCTTGCTGGCCGTAAGTGATTTTACAAAATAAATCTTTCCCTAAATGTATTTTTTTGTTAATATTATTTTTTAATTTATGAAAATGTTCTTATTACACATTAGAAAATATCATTGTTAACGAAGGAATAAAATGAGTATGTGGAAAAACTTAAGCTTAAAAGATGCTTTCATCAAGAAAGGGTGTGTAAATTAATGATTTTGTGTGTTTGTTTGTTGTATCTCACACTTGTGCTCTGTTTCTAG
Seq C2 exon
CCGGCCCTACCTCTTACTGCAGTATGTGTCATATGTAAGGAAGGCAACCAGGAGTCTGATGACACTGAGTCCGTCCAGATGCTCATGGAATGCTCCGAATGCGCTCAGATCACTCATCCAGAATGTATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078133:ENSDART00000111839:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.023
Domain overlap (PFAM):
C1:
PF0200815=zf-CXXC=WD(100=52.2)
A:
NA
C2:
PF0062824=PHD=PU(60.0=81.8)
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:
CCGTCTCATCTATACCGGCCA
R:
CTGGATGAGTGATCTGAGCGC
Band lengths:
358-2088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]