DreINT0085331 @ danRer10
Intron Retention
Gene
ENSDARG00000036593 | kdm2ba
Description
lysine (K)-specific demethylase 2Ba [Source:ZFIN;Acc:ZDB-GENE-040426-2195]
Coordinates
chr8:40212086-40212963:-
Coord C1 exon
chr8:40212877-40212963
Coord A exon
chr8:40212404-40212876
Coord C2 exon
chr8:40212086-40212403
Length
473 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TATTTTTTTGCCACTCTTTGGCC
3' ss Score
-0.83
Exon sequences
Seq C1 exon
GTGAAGGATGCAGCTGGTGTTGTAAATGATGAGCTTCCTAACTGCTGGGAATGTCCGAAATGCAATTACGCTGGGAAAACAGGGAAA
Seq A exon
GTGAGTATCTGGGGAACAGTAATACAATGGTTTGATTGTATACAAAAATTTGCATTTACATTTGAAAAGAGGTAAAAAGTATTGTAGACAATGCAGATGTACATTTTAAAGTATGTATCGAACAGACTAATTAATGTGGAATACAAGAATGCATAGGATATTTGTACATTTTTTTCTTATGTAACTTTTGCTACCTCACATATATAATTCCTTTTTTTAGGTTCATACCTAAAACATTAAGAGACGTGTGTCATTCAGAATGACAAGGCCATGAGGAAACTGTCAAAATAAATCTAGATTCAAATAAAATGCAAATAGCTGTGTTATTCAAATTGATTTCAGTAACCTATGGACTGTTAAGCTATTTCTCTGAAATGTTTAACAGTTAAATAGAAACACAATTCGGTCTTGGTGAACAATGAATGTCATTCATAAAGTATAAAGTTTTTTTTGTATTTTTTTGCCACTCTTTG
Seq C2 exon
GCCTGCAAGCAAAAACGGGGCCCAGGATTTAAGTACGCATCCAACTTGCCCGGGTCCCTGCTGAGGGAGCAAAAAGCTGGACGTGACGGAAGAGAGGAAGGGGACCAGACATCCACTGGACCGGCATCCATCAAGAGGAAGACTGAGAGGGAGGAAACTCCCAGATTGAAGACTGAGGATTTACCCTCACGCCTTCCCCCACTGTTGTCCCCAAGTGGCCTGCCAAGACCACGATCTGAAGTGCCCAACTTCTTGAGGAAGAAAAGGAAGTTATTTGACGATGATGAAGAGGAAGAGGAGGCTAGTGCTAAAAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036593:ENSDART00000053158:6
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=0.868
Domain overlap (PFAM):
C1:
PF0062824=PHD=PD(35.4=79.3),PF0030115=Rubredoxin=PD(60.0=93.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAAATGCAATTACGCTGGG
R:
AGCACTAGCCTCCTCTTCCTC
Band lengths:
342-815
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]