GgaINT0006034 @ galGal4
Intron Retention
Gene
ENSGALG00000004225 | KDM2B
Description
lysine (K)-specific demethylase 2B [Source:HGNC Symbol;Acc:HGNC:13610]
Coordinates
chr15:5569410-5570414:-
Coord C1 exon
chr15:5570292-5570414
Coord A exon
chr15:5569555-5570291
Coord C2 exon
chr15:5569410-5569554
Length
737 bp
Sequences
Splice sites
5' ss Seq
TTGGTGTGT
5' ss Score
3.29
3' ss Seq
GTGTGCTTTGTGTCTTGCAGCGG
3' ss Score
11.37
Exon sequences
Seq C1 exon
CAGCTGCCTTTTGTGTTCCCTCCTCCCTGTTCGGGCCAAACATGCAGGACAGGAACCGTTGACAATTAAGTGATGAAACTCTCCGAAAAAATGAAGACGGAGAAGGACTCTGGAAGAAGATTG
Seq A exon
GTGTGTAGCTGCCTTCGGTCTCTTTCCTATTTGTGCCTTTTAATTGATTTTGCTTAATTGTTCGCACAGGGAGCGGGGCAGGCTGCAGAGCGCCGTAGCTCTCCACAGAGCAGCGCAGACACCAGGGGGGATTTAACAGAGGGGAACGGGAGAGGGTACAGTATTATTTCTCCCCGTGGCAGCGGCTCGGGCCGGTGCGTGTTGCACCCCCCGACCCCCACCTCCGGGCGTTGCTGCGGGGCGGGAGCAGCGGCAGCGGCACCGATCCCCCCCGCCCTCGTTAACCCCTTCCTCTCCCGACTTTGGCTCCGGTAGAAGCGCGCAGGCTCCGGCCGCGATAAGGGGGTGGGGGGGGAATCCATCGCGGCGTTACATAATGCGCCCAGCTTTTAAATCGCGGCTTCCGGCGTGGCTATGGAAACCCCCGGGATTATGTAAATACCGAAACCTTAACGCTGTGCTCAGGGGTAAATGATACCCCCTACGCCCTCTGGAGTGGTCCCGTATTCACGTGCAGCAAAATAACAACTGGCGGTGGGGACACGCGCGTCCCTCACCCCTGTTTAGCTTTTCCCGCAGCTCAGCACCTGTTAGCGCTGTCAGGAGATGGAAAAGGTGCAGTACACGGCCGGGGCTCGCACCGGGGGAGGATTGGCGAATTTCATGCTCCTACCGCTGATCGCATCACTGTCCCCGCCGATCCCACTTTTCCGCCCTGTGTGCTTTGTGTCTTGCAG
Seq C2 exon
CGGCCCATTGGCAGGAGGAGGTACGATGAGCACGAGGACCTCTCGGACGTGGAGGAAATCGTCAGCGTCAGGAGTTTCAATCTGGAGGAGAAATTAAAGAGCAAAACGTACCGCGGGGATTTCGTGCACTCTATGGACGGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004225:ENSGALT00000006725:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.102
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF136211=Cupin_8=PU(12.0=75.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCTGCCTTTTGTGTTCCCTC
R:
CCGTCCATAGAGTGCACGAAA
Band lengths:
262-999
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]