GgaINT0002790 @ galGal3
Intron Retention
Gene
ENSGALG00000013286 | KDM2A
Description
NA
Coordinates
chrUn_random:27636272-27637612:-
Coord C1 exon
chrUn_random:27637474-27637612
Coord A exon
chrUn_random:27636351-27637473
Coord C2 exon
chrUn_random:27636272-27636350
Length
1123 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TCCTTTTCTCCCCACGCCAGACT
3' ss Score
7.11
Exon sequences
Seq C1 exon
CGTGGCACAATGAGGCGGCGTTACGAGGACGATGGTATCTCCGATGACGAAATTGAAGGGAAGAGGACATTTGACCTTGAGGAAAAGCTCTCCACCAACAAGTTCAATTCTACCTTCGTCATCTTCATGGAAGGCAAAG
Seq A exon
GTTTGTGCTGTGGCTATGGCTTGCGCTGTTGCTGTCTGTAACCAGACAGCTGCTGTGGTTTTCCTCTTCTCCACTGCAACGTAGTGTGTGAGGTGACCTTTTCCCCAGGCTTTTAAGAGAAAGCTGACAGTACTCACAGTTGGATGTGTTCTCTGCATCTGACTACACACTGAGCCTTCCCGACTGCCAGCATGAAGGGCAGTTGTAGTGATAATCAAATCCCTTTCCACTGTCCTATGCTTTGCTGCTTTTTGTTTTCCACTGAAGCTGAGGAAACTGACTGCTGTTCACACTAGTTCTGTGCTTTCCTCTCCTGTAAACTGCTTTCATAAGCCATGTGGAGCAGAGGAGGCAAGAATGTTATGTGTGCTCCCCTGCAAGTCCTGCAGCAGTCCCCAAGCAGCTTGCCAGCAACGTGAGGCTTACCAGTAAAGGTTTGGTTCACGCTTCCCAAGTCCTTAAGCCAGGGAACTGGTAACAGGGAGCGTGTGTGGGAAATGGCATGGAGTAAGCTCGCTCCGGAAGGAGATGTTCTGGCTTGCATCTCTGCAAGCTCGCTAGTACACATGGCAGCCAGGAGCAAGAGGGTTTGCCTGGGACAGCACCTGGGATTGCAGCCACATGTCTGCTAGATGCTCAGTAGAGTACATGGGATCTCCCTGCTGTCTTTTGCCATGTGCACAGCTCAGTGGGATGTCCTTTCGTCGCACAACCAGTGCAAGCCCTCATGAGGATTTATCATGAGGGAGGAGATCCTGCTTGGCTGTGAGTTTCTTTGGGAGGCGAGGACCAGAACCCCATGCTGTTTCTCTGTCTAGCCCAGCCTCTGGAGCAACTCCCCCTCCCTCACAAGCGGTTGTCTAAGAGCTGTCAGCAGCATACACCATGCTGCTTACAGAGCTGCCACAAAGGAGTTCCTGGATTTCTGCAGGAGCATGGGAATGGCAAGACTCCCTTTATGGACAGCTGTGCCACAGAGATTTGAGGAGGTTCTGAGCAACCTGAGTAGAGTGAAGCTAGTTTGCAGGGAGCAAGGTTAAACTAGAGATCTTGTCTAACCTCTGTTTTTATATAATCCTCTGTAGGAGTCTCACCTAACACCTTCCTTTTCTCCCCACGCCAG
Seq C2 exon
ACTTTACAGTTGAATACATCCAGCGAGGTGGCCTGAGAGACCCCCTCATCTTCAGGAGCTCTGATGGCCTGGGTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013286:ENSGALT00000021696:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.128 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTGGCACAATGAGGCGG
R:
ATACCCAGGCCATCAGAGCTC
Band lengths:
215-1338
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]