DreINT0085332 @ danRer10
Intron Retention
Gene
ENSDARG00000036593 | kdm2ba
Description
lysine (K)-specific demethylase 2Ba [Source:ZFIN;Acc:ZDB-GENE-040426-2195]
Coordinates
chr8:40211000-40212403:-
Coord C1 exon
chr8:40212086-40212403
Coord A exon
chr8:40212007-40212085
Coord C2 exon
chr8:40211000-40212006
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
CATTTCTTGAGTTTTTTTAGCAG
3' ss Score
0.73
Exon sequences
Seq C1 exon
GCCTGCAAGCAAAAACGGGGCCCAGGATTTAAGTACGCATCCAACTTGCCCGGGTCCCTGCTGAGGGAGCAAAAAGCTGGACGTGACGGAAGAGAGGAAGGGGACCAGACATCCACTGGACCGGCATCCATCAAGAGGAAGACTGAGAGGGAGGAAACTCCCAGATTGAAGACTGAGGATTTACCCTCACGCCTTCCCCCACTGTTGTCCCCAAGTGGCCTGCCAAGACCACGATCTGAAGTGCCCAACTTCTTGAGGAAGAAAAGGAAGTTATTTGACGATGATGAAGAGGAAGAGGAGGCTAGTGCTAAAAAGAAG
Seq A exon
GTAAGGTGTAATCACAGATCTTTGCATAAAAAACCTACTGTACCCTTTTCATTAAGTAACATTTCTTGAGTTTTTTTAG
Seq C2 exon
CAGAAGAAACCATGGAGACCTGAAGAACCTTTGATTCCCAAACTTTCTCACATGAAAGCAGAAGAGGAGGAAGACAACTCTGATGAGGAGGAAGAAAGGCAGGAAAAGCGAGAACAACCTCGTCGATCAATAAAAAAAGACTATAGCATAGTGAGAAAAGAGGAAGAGCGTGAGGAAGACAGACGGGAGGACAGAGATCCCCCTTTCAGATCCTTAAAGGAGTTCCACAACATGAGTAAAGAGGAAGATCATGATGAAGAAAAGGAAGACGATGATGAGGAAGAGGAAGAGGAGAGTAATGGGAAACGAGGAAGGGACAGCAGCCCTGCACTAAAAAACCTTTCTCTCTCGCTTGAGAGTGATGCTTCACGGTGCAGCTCTCCAAGGGCTGGACCGAGCAGCGAAGGAAGTGAGACACAAGAGAAGGCCCCACGTGCTCGAGCAAGGCGACACCGGCGCAAGCCTCCAAACCGCCAGCTCAGTGCAGAGCTCAGCAAGCAGCTCAACATGGAGATCCGTCGCACAGAACATTCACTGGCCAATGAAAACCAGCAGCCACTAATGAGCGAACCTGAGGACAGTGAGAACGAGGAACCAAAAAGAGGCTTGCGCAACGGGACTGCAGGGAACGCAGGAGGAGGCGGAGGAGGAGTTGAAAGGGGAGCAGGTGGAGAGGCAGGAGGGGAGCGACCGCACTTACGAGCAAGGGAGATGAATGGGACGTCTTGGGAGCTTCGGCACTTCTACCCTCCTCAGATCACCCCACTTGGCTTGAACCGCAGTTCGCCTACAGTCAGACCTCTTCCTGCCCGTTCCCCTCCCAAGTGTGTTCAGATGGAGCGACATGTGATCCGGCCACCGCCAATCTGCCCTCCACCTGACAGACTACCACTAGCTGATGGTCGTAATCACATAGCTCCCAGAGAGGCATGGCTGGCCATCTTCAGCCACTTGAGCCATCGTGAACTTTGTGTGTGTATGCGCGTGTGCCGGACATGGAATCGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036593:ENSDART00000053158:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.868 A=NA C2=0.827
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0064628=F-box=PU(77.6=13.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTACCCTCACGCCTTCCC
R:
AGGTTCTTCAGGTCTCCATGGT
Band lengths:
171-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]