GgaINT0002803 @ galGal3
Intron Retention
Gene
ENSGALG00000013286 | KDM2A
Description
NA
Coordinates
chrUn_random:27617267-27618876:-
Coord C1 exon
chrUn_random:27618787-27618876
Coord A exon
chrUn_random:27617980-27618786
Coord C2 exon
chrUn_random:27617267-27617979
Length
807 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GCCATCCTGCCTCCCTGCAGAAG
3' ss Score
10.49
Exon sequences
Seq C1 exon
ATGGATGGGGAAGGGCTACTCAATGATGAGCTCCCCAACTGCTGGGAATGTCCCAAATGCTACCAGGGTGACGACACAGAGAAGGGCCAG
Seq A exon
GTAAGAGGCAAGCTACATTGAGACAGGGGAGGGCATGTGTCCTGCTTTGTGTAAAGCAGGATTTGGGCCAACCAGGGCTGGGAAGTGATTCTGGAAATGCATGGGTGGGGTTGTGGGGTGGCCTGGAGACTGGGGGACCCCACTGGGCGGTGACCAGGGTGCAATGCTGGGGTGAAGGAGCTAGCAGACACTGCTACAGCCTGGTCTCAGGGCTGACAACTGACATCCCCTGCTTGATCTCTGGCTCCCAGGGAGCCCGCTGGCATGCCAGAGCCAGGCTCCTGCAGAAACGGCGAGCGCTACCAGGTCCTCCTGCCAGGCAGCGAGCAGAGCACACGTGGCAGCATTCAGCCCGCTGGCGGCTGCTGACACTGCCCAGGATGCTGCCCTATCGCTACCACATTGACTGTAGGACTGTGCCCGCTGCAGTGGATGGAAGCAGGGCAGCCAAGGCAAGCTGGGCACCGAACAGTGTCCTGCAACATCCTCACTTTCTCCTGGGTGATGTGCATGCTTGGGGTGCACTTATGGCTGGCTCTTGGGTCCCCCAGCACTGCAAACAGGCAGAATGAGCACCCTTTTGCCCCCTCGGTGCCTTGTACTGAGCTGTGATCCTGGGAGTTGCGAGAGGCAGGGGGCCTGTGTGCACAGAGTGGAGGCCAGCCCCGGCCTCAGGGATTCCGTTCCTGTGAGAGGAGAAGGAAATGCCAGGGTTTTTTTGCTGTGGGTGTGGTGCATGACAACCCTGAGGGATAAGAGGAGCACGTTCCCCCAGCCCTGCTAACCTGCCATCCTGCCTCCCTGCAG
Seq C2 exon
AAGCGCAAGGTAGAAGAGAGCGATGATGACATGGCACAAGCCAAGGTGCTGCGACCCCTGCGGAGCTGTGAGGAGCCCCTGACCCCGCCACCCAACTCGCCCACCCCCATGCTACAGCTGATCCACGACCCGGTGTCACCGCGAGGTGTGGTAACACGCTCGTCCCCAGGCGCCGGTCCCAGCGAGCACCACAGTGCCAGCAGGGATGAGCGATTCAAGCGGCGCCAGCTTCTGCGGCTCCAGGCCACGGAGCGAACCATTGTGAGGGAGAAAGAGAACAACCCCAGTGGCAAGAAGGAGCTGTCAGAGGTGGAGAAGGCCAAGCTGCATGGCTCCTACCTCACCGTGACGCTCCAGCGCCCCACCAAAGATGTCCATGGCACTTCCATTGTCCCCAAGCTGCAAGCCATCACCGCCTCCTCTGCCAACTTGCAGCACTCTCCCCGCGTGGTGATGCGCCACACGCCTGCCCGGATGCACCCGCGGGGTGGGGGGGAGGACGAGGTGGCCGCTGAGGAGGACGAGGAGGACGAGGATGAAGATGATGAGAACATGGAGGAGGGGGGGGCTGCCCGCCTCAATGGCAGAGGGGGCCGGGTGCAGGAGGGTGAGGAGAGCTGGATGCAGCGCGAGGTGTGGATGTCTGTCTTCCGCTACCTCACCCGCAGGGAGCTCTGCGAGTGCATGCGGGTGTGCAAGACCTGGTACAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013286:ENSGALT00000021696:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.845
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0064628=F-box=PU(71.7=13.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAAATGCTACCAGGGTGAC
R:
TCCACCTCTGACAGCTCCTTC
Band lengths:
353-1160
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]