RnoINT0078346 @ rn6
Intron Retention
Gene
ENSRNOG00000019145 | Kdm2a
Description
lysine demethylase 2A [Source:RGD Symbol;Acc:1309419]
Coordinates
chr1:219607557-219608685:-
Coord C1 exon
chr1:219608547-219608685
Coord A exon
chr1:219607636-219608546
Coord C2 exon
chr1:219607557-219607635
Length
911 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
TTTTTCCCCCATGGTTTCAGATT
3' ss Score
8.99
Exon sequences
Seq C1 exon
CGTGGTACCATGCGACGTCGCTATGAAGATGATGGCATTTCAGATGATGAAATTGAAGGGAAAAGAACTTTTGACTTGGAAGAGAAGCTCCATACCAACAAATATAATGCCAATTTTGTTACTTTTATGGAGGGAAAAG
Seq A exon
GTCAGTATCTTTTTTTTTTTTTTAAAGATTTATTCATTTATTATATATAAGTACACTGTAGCTGTCCTCAGATACACCAGAAGAGGGCATCGGATCTCCTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTTTGGAAGAGCAGTCCGGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCCAGTATCATTTTTGATTCAGACTCTGAACCCCTTGATGTAAGAATCATCAACTTGAGATTTTAGCATCTGTGCAACATTAAAATATTACCTGTTGAGGATATTTAGTTTTTCTCATAATGCTCATTCTCTGCCAGATTTGAAGTACTCTTTTATTAGAATAGGAATGTTACCAGGAAAAAGACCTTTTTCCTTTTCTGATTTCTTGGCTTGGGTTTAATTAAAAATGATACAGGTATGGTGGCACATGCCTGGAATGTAAGAATATAGGAATGGTCTATATGTTATAATGTATGTATAAGTATATGTAATGGTAAGTTAAAGGCCAGCCTGGGCTACATAAGACTTTGGATAGAAGGAGAGGGAGCAAGAGATCAAAATAAAAAGAGTACAATGAAATTTCTTTTACGAGGTTGGACTCCTTATGTGTTATGTAGTCTTGACCCTCAGGAAACTATGGAAAGATTGGATGTATAATGTTCAGACTATTTAAGCCATTAAGAGACATAATTTCTAATTAGGATGTATGAAGTGACTCATTAACACAACTACCTACAAGCCCTGATTGTCAATATACTTTCTGTATTTCCTAAGAGATATAAAACATCATATGCACAGATAACAAACACTATAAATACATTTTTACTTAAAATTCCTTTTATAATTTTTTTTTCAATGATTCCTCTCTAATTTTTTCCCCCATGGTTTCAG
Seq C2 exon
ATTTTAATGTAGAGTATATCCAGCGGGGTGGCTTGAGAGACCCTCTCATTTTCAAGAATTCTGATGGACTTGGAATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019145:ENSRNOT00000054850:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
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:
CGTGGTACCATGCGACGTC
R:
TTCCAAGTCCATCAGAATTCTTGA
Band lengths:
214-1125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]