GgaINT0002796 @ galGal3
Intron Retention
Gene
ENSGALG00000013286 | KDM2A
Description
NA
Coordinates
chrUn_random:27627698-27629816:-
Coord C1 exon
chrUn_random:27629663-27629816
Coord A exon
chrUn_random:27627814-27629662
Coord C2 exon
chrUn_random:27627698-27627813
Length
1849 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TCAAACTCTTTCTCCCAAAGGTT
3' ss Score
9.04
Exon sequences
Seq C1 exon
ATCTTCTGGTTGATCCCTCCTACACCCCAGAACCTGGAGCTCTATGAAAACTGGCTTCTCTCAGGGAAGCAGGGAGACATATTTCTTGGAGATAGGGTGTCAGAGTGCCAGCGCATCGAGCTCAAGCAGGGCTATACGTTTGTCATCCCCTCAG
Seq A exon
GTACTGCTGGGTGGGCAGTTGTATCTTGTCTTTTGCCAGGATTGTGCTAAGAGGCTGAAACTCCTTAAGACACAAGCAGAATCAGGACAGACAAAACTTAGCTTTCTCTTTCATGAGTAGAAGAGAGAGGGCAATGTTATGTGGCTCTGTTCTCTTGCTTGTTGGCTTTCAAAACATGACTCTCATGGCACTGCACATTCAACACAGGTGTCCAAAAGGCTCTGTGTGTCTTTCATTACAAAAAGAGGCTTTCCCAAAGCCCATCATGCTGACATGTGGCAGCCTTCATTGCCAACACGCACTGCTTTGCAAGACAGCACAGCTCTTCTGCTTTCCAGCTCTCTTGTGAAATCTCTGTGGAGTTGAATACAAATCATGAAGGAAGAAAGAGAGTTAGTGTATATGATTAGGGAAGATGGGAAGACTGGAAAGTGTAGAGCTAGAAGTGAATGTTGGAAAATCCTGAAACCTGATAAGGCTGGGAAGCAGTAATCTGGATAGACTGGCAGATGAGAGCCTTACAGAGGGCTTGGGCAAGGAGACTTTATGGTTGAGAGTGGGAACATTCTTAAAGCTCCAAGCTAACAGTGGTCCACAGAAGGAAGCAGAACACTGATTCTGGCGCTTTTCCCTGGGTGATCCCTCCATTTTGGGCATAGTTTCCTAAGGCAAGTTAAGAGAAATCCTAAGCCTGAGTTGGTTAAGAAAGTAGAACGAATGGGAGTGCATCAGCAGTGTCTTGCACTGCATCAATGCAGTGCTGTGCTAGAAAACAGCAAAGGTGGAAAAGATGGGCTGCAGAGTTGGATGGAAACAGCAACCTGAGTTAATAGTTGGCAGGAGCTGGCTCACAGCCTTTCAGAGTTGGGATGTCTGTAAAATGCCCTAGCAGTTGGGAACACGCTCTTGGAAGGAGAAAGATTATTGGACCCCTTTCCAGGGATCCCTTTCAAGGCTTCAAATAGAACTACCACGTAAAAGTTAGGTCCATCAGGCTGTCTCAGATGGCAAAAGCTGTTGTAACCTGCTGTTTCCTGTGACAGTAGTGCAAGCATTAGCTGTATTGTACACACGTTCCTGTAGTTTACAGCAGAACCAGGAACAGAAAGCAGCAGGGGTTGCACAAGTGACTCTTTAGAGTCATGGTGTCTTGACTGACTCTTTTTGGCCTAAGGGAGCCCATGCAGGAATCTACAAAATGTTGGGCTTGTCTGTATTAACCTCTGAGACAACAGAACTGCGACTTGATTTTACTTTGAGGGGTTTTTTTTCCATTGTTAAATAAACTCTGGGAGACTGTTCTTGGTGCTGCTGATGTCTTTAAGTATAACACAACTAGGAAGAAACTGGCAGAGAGACTGGAATGACAGAAAGTTGTGGATGGGAGGTAGATATGGGCACACTCGCTACCTTGGGAAGATGAATTTAGGTGTTTAAGTATAAATCTGCCTCTAGCTCCTAGATGGGTAAAGTGAGCTGAATATTGAGTAATTCAGTAGTGATGCTTTGTGAGGACTAGACATTGCTATGCTAAAGCAAGTCTCAGCCTTCCTCAAAGAGTTGGGATGCAGATGGTCCCATCCTCTCCTTCCTCTGCTGCTAGCTCTGGCTGATGTGATGGGTCGATGGCTAATCTGTTAACAGCTCACCTAGGTACGGTTTAAAGCCTAACTATCAGAGTAAGCCTATCTGAGCAACATGGAAGTTATGCAGATTTGAGAGCCCTTTTCTAAAGACTGCAGTTGATAAGAGATTTCAAAGGAATTGACTTAGTAGGGACTTAAGTAGTTGTGAGACTTTGACCTCCCCTAGTCACTTAGCAGAACTTTTCAAACTCTTTCTCCCAAAG
Seq C2 exon
GTTGGATCCATGCTGTGTACACTCCCATGGACACACTGGTTTTTGGAGGCAACTTCTTGCACAGCTTCAACATCCCTATGCAGCTCCGGATCTACAGCATCGAAGACCGCACGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013286:ENSGALT00000021696:8
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=FE(50.5=100)
A:
NA
C2:
PF0237317=JmjC=PD(17.8=46.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGTTGATCCCTCCTACACC
R:
GTGCGGTCTTCGATGCTGTAG
Band lengths:
262-2111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]