GgaINT0002797 @ galGal3
Intron Retention
Gene
ENSGALG00000013286 | KDM2A
Description
NA
Coordinates
chrUn_random:27626746-27627813:-
Coord C1 exon
chrUn_random:27627698-27627813
Coord A exon
chrUn_random:27626873-27627697
Coord C2 exon
chrUn_random:27626746-27626872
Length
825 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TCCTCTTCCCTCTTCTGCAGGTC
3' ss Score
13.23
Exon sequences
Seq C1 exon
GTTGGATCCATGCTGTGTACACTCCCATGGACACACTGGTTTTTGGAGGCAACTTCTTGCACAGCTTCAACATCCCTATGCAGCTCCGGATCTACAGCATCGAAGACCGCACGCGG
Seq A exon
GTGAGGAGAGCTGAGAGGAAGCAGCCTCTTAGGATGGCAGGGAGGGCACAGGAGAAGTGGTGTGCAGGCAGGCAAGCTGCATCTCACCTCATGACAGACTGCTGAAACTCCCCTGCTAGATGTGCTACAGGCTGTCCCTCACCCAAGCTCCTTGCCTGCACATGTTAGGGCTTGCTATGTTCCTTCATGCTACCTCCAGTCTGATGTCAGGCATCCAAGGGGTTGAAGGCATTGCAGGGAGTTTGTTGGGGATCTCCCCTGGCGAAGCAGCCAGGGAGAAGGAAGGCTGCAGCAGTTCTTTGGGAGTGCATCCAAGCACGATGCCTGTGCCCTTAGCCATCTGCCTTCTGCTCCTGTTTGATGTTGATCCTGGACTTTGATGTGATAAAGATGGCTGAAACTAAAGGCTCCCAGAAAACTCAAGCCAAGAGTGCTGTTGACAAGTGGGTGCTGTCCCTTGTTTCTTGTGGAGATGTGGCTCCTGCAGAGAAGCCTCAGGACAGCCCTGGGCTGTGGCATCTGCTGCTCTCCTGTATTAAGGAGAGGGAGGCCTGTGAGGGAAGCACAGTGGAGAGCTGCAATCCTAACAAAGACAAAGGAAATGTTAATGTTAATGACTTGCAAGTGAGAAGTGCCTGGTGTCTGCTCTGCCTGGCCTCTGCTCTCCTTCCACATGGAGAATGACTTCTGGCATGGATGCTGTTGTTACACATGTACATGTATTTCCTGCCTCTCAGGAGGGGATCGAGCTTGCTCAAGGCAGCACAGCAGTCTGCAGCCCTGTGCAGAAGGCAGTCTGAACTGATCCTCTTCCCTCTTCTGCAG
Seq C2 exon
GTCCCAAACAAGTTTCGTTATCCCTTCTATTATGAGATGTGTTGGTACGTGCTGGAGCGCTATGTCTACTGCATCACCAGCCGCTCACATCTCACCAAGGACTTCCAGAAGGAATCACTCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013286:ENSGALT00000021696:9
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=PD(17.8=46.2)
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:
ATCCATGCTGTGTACACTCCC
R:
CCATGCTGAGTGATTCCTTCTGG
Band lengths:
238-1063
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]