RnoINT0078334 @ rn6
Intron Retention
Gene
ENSRNOG00000019145 | Kdm2a
Description
lysine demethylase 2A [Source:RGD Symbol;Acc:1309419]
Coordinates
chr1:219594834-219597557:-
Coord C1 exon
chr1:219597442-219597557
Coord A exon
chr1:219594961-219597441
Coord C2 exon
chr1:219594834-219594960
Length
2481 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ATTATTCTTTTTCTCTGTAGGTT
3' ss Score
11.09
Exon sequences
Seq C1 exon
GTTGGATTCATGCTGTGTATACTCCTACGGACACATTAGTGTTTGGAGGCAATTTTTTGCATAGCTTTAACATCCCCATGCAATTAAAGATATATAGTATTGAAGATCGAACACGG
Seq A exon
GTGAGTAATGTAACAATTATAGGTGAAGATATTTCCCCATTTAAGACAGATATTAGGTGAACATGGTAACACATGCCTCTCATCTTTGTAGCACTCAGGGACAGGAAGATTGTGAGTTTAAGGCCAGCCTGGCCTATGTAGCAAGACCGTGTCTCAAAAGAAAAAGACAAGTTTAATAAAGAGATTGATTGATGGGATGAGGTGGCTTAGCAGGTAAAGATACTGATTGATAACAGAGCTCAAGCCCCAGGATGAACATGGTGTAAGGACAGAACTGACACTGGCAGGTTACCTTCTAACTAACCTTCATATGTACACACTGCTATCCTCCATCCTCACAAATCACTAAGTATATCAGACAGGGATTCCTGTATCATTTGTTACATTTTCAGATTGTTTTTTCATTAAAAAGTTTCCACATATTGAGAACATAATAAAAAGAAATTACTGAACACTTGACTTTTGTTTTGGGGACTTTTTAAGTCTGTGAAGCTGTTATCTAGATATTTGTATAATCTCTTGAAACATGTTTTTCATTTTTACACTCATGAATAATTTGTGGAATGGGGATGATTACTTCAAATTTCATACCTTGAGGTTTTCTGTCTTTATTTTGATTACCAGTCCTCCCCTTCTTTACTTTTCCATTTTAAAAATACAAACATCTTTTTAAAACTAAATTTTATTTATTTTGTGCATTTATGTTGGGTTGCTATGCCAAGGCATATGAATGGAGGTTAAAAGACAACTTGCAGAAGTCATGTTCTCTTATTTTCACCATGTCCCAGGAATGTAATTGAGGTCGTCCAGCTTGGCTGCATGCGTCTTTAACCATTGGTAAAGGCCATCTTGTTGAGCCTTTCCCTCCCCCAATCATAAGTGTCTATATTAATCAGCTTTCGTAAAATTTATTGAGTTTTTTTTTTAATAATTTATACTTGACCTGAACTCCTCAAGAACTTTCCCAAAAAGTATTAATATACTTCAAAGGCTAATCAAGAATAGTGTGTTGTACTTAATTTAAGAAGACCCAATACTCTTTGGTCAGAAAGAAATTGGCTTTTAAATGAGAAAGAAGAAAATTCTGGTTAAAGCCATAATCATACAAGAAATCCAGGTCTGGGTCTGGTCATATCCTTCATTGTTTGTATGCTTCTTGTCTAATGATAAAGTGATTTCCTCACTTCATAATGATACCCTGTGACCTGGTGAAAGGTTTTGAAAGGGATTCCTTTTTATTTTAAATTCACGAACACAGCTGGACATCATAAGGGGTGCTGTTTGGCCTTAATATATAGACTTTCTTAAAAGAGAGTGGCAGATAGAGTCTGTCTAGACTGACTTAATTAATTTTTCAAGACAGAGTTTCTCTTGTGTTTTACAGCCTTGACTGTCAGTACTGGTCCATGCCTTTAATCCCAACGGCAGAGGCAAGCAGATCTCTGTGTGTTTGGGGCTAGCTTGGTCCATAGAGAGAGCATTCCAGACAGCCAAGGCTATATGAAACCTTGGCTGGAAAGACCAAAAATCTGAAATAAAAAACAACTCTGGCTGGTCTTAAACTCACAGAGATCCACTTGGCTCTGCGTCCCTGTTACTGGGATTAAAGGCATGGGCCACCATGCCTCGTTTAATTTTGTTTTTTTTTTTTTTTAACACAGGGTTTTTCTATGTAACTCTGGCTGTTATGGAACTTATATGTAGACTAGACTGGCCTCAAACTCACAGAAATATGTTTGTCTCTGCTCCCTGAGTGCTAAGATTAAAGATATTAGCCAGAGGGTAGCAGATATATTTTAGAATGGTACCTGGATCTCATCTTCTTTTTTCATTGCTTTATGGTAATTTTAATTTACTTTATCCTCCACAGTGGTATATCTAAGGGACATTTCTTTATATTTCTGAAATAATTTTTAAGATGCTCTGAATTGGAAAGCGTGTTCATGCTATAAAGATAGTGACAGATAAAACCATACAGATTAGTCTGATTGGTGACGACAAAGGACAGAGGCTCAGTCTTCTAAACAGCATGCAGCTTGAGAACGAGTCTAAAATTATACTTTGATACATACAGTGATAGACCTTCTATAAGTGTGACTTTATGTCCTGTCTATCATTCATTAGATTCTTTGTCCTGTGTTCTTTAAGATTCAGAAAAAACAGAGCCAAGGTTGGAATGCCTTCATTCTTACTCTAAAGCATTTCTTTTCCTTTTTGAGACAGGATGTCTCTATGAAGTCCAAACCTGCCTTGACCTTATTTCTTGTGTTGAGATTGCAGTTACAAACTACCATTCCTGTCTCAAAATTGACAGATTGACTTATGTTCTAGCCTCAGAACTTAAGTCTAGCTTGAATTTATAGATTGACTAACAATAATTTTTCCTGGGTTAATTACTGCAGTTATAGAGATTGTCTTTTATATTCTCTTCCCTAGAAAATTGTCATTGCCTTGTCTTCTCATTATTCTTTTTCTCTGTAG
Seq C2 exon
GTTCCAAATAAATTCCGTTACCCATTTTACTATGAAATGTGTTGGTATGTGTTGGAGCGCTATGTATACTGCATAACCAACCGATCTCACCTAACTAAGGAATTTCAGAAAGAATCCCTTAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019145:ENSRNOT00000054850:10
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=PD(17.8=46.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]