RnoINT0078338 @ rn6
Intron Retention
Gene
ENSRNOG00000019145 | Kdm2a
Description
lysine demethylase 2A [Source:RGD Symbol;Acc:1309419]
Coordinates
chr1:219578437-219579176:-
Coord C1 exon
chr1:219578907-219579176
Coord A exon
chr1:219578569-219578906
Coord C2 exon
chr1:219578437-219578568
Length
338 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGATCTTTGTCTTCTTGTAGCCT
3' ss Score
9.04
Exon sequences
Seq C1 exon
CTTAAATTTCCGACCAGGCCAAAGGTGAGGGTTCCTACAATTCCCATCACAAAGCCTCACACCATGAAGCCGGCTCCGCGCCTAACACCTGTAAGGCCTGCTGCAGCCTCCCCCATTGTGTCAGGAGCCAGGCGGAGAAGAGTGCGCTGCAGGAAATGCAAAGCCTGTGTGCAAGGAGAATGTGGAGTCTGCCACTACTGCAGGGACATGAAGAAATTTGGTGGGCCTGGACGCATGAAGCAGTCCTGTGTCCTCAGACAGTGCTTAGCA
Seq A exon
GTAAGTGATCTGGGTGAAAACTTTGCAGGGAATGGTATTGGTGCCAGAGAAGTTATGTATATGTTAAGTCAGGGAGACTCAGCTGAGGTGGGTTTGGAAGGAAAGTTATCTTAATAAGAAAAGACAAGCCAACAAGCAGTGAATTAATTGCCTCCAATAGTCTAGTTCCTAGACAGTTAAGTCCCTCATCTTTGTCAGTCATTTCCCCAGTAAAACCCCCTCTGCTTACTACCTTGTCTTCGTACATCCCAAGTGTGCCAAGTCTCCTATCTTCATTTAAAGGGACTATGAAATTTAAAGGTTCAAAATCTGGTCTTCTGATCTTTGTCTTCTTGTAG
Seq C2 exon
CCTAGACTGCCTCATTCAGTTACATGTTCTCTCTGTGGAGAAGTAGATCAGAATGAAGAGACACAGGACTTTGAAAAGAAACTCATGGAATGCTGCATCTGCAACGAGATAGTTCATCCTGGCTGCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019145:ENSRNOT00000054850:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0200815=zf-CXXC=WD(100=52.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGCCTCACACCATGAAGCC
R:
GGAGGCAGCCAGGATGAACTA
Band lengths:
350-688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]