RnoINT0088908 @ rn6
Intron Retention
Gene
ENSRNOG00000004437 | Map2k6
Description
mitogen-activated protein kinase kinase 6 [Source:RGD Symbol;Acc:620666]
Coordinates
chr10:98793419-98795471:+
Coord C1 exon
chr10:98793419-98793532
Coord A exon
chr10:98793533-98795351
Coord C2 exon
chr10:98795352-98795471
Length
1819 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TAATATGTGTTTCCATTCAGCGG
3' ss Score
8.15
Exon sequences
Seq C1 exon
AACTTTGAGGTGAAGGCCGATGACTTGGAGCCTATAGTGGAGCTGGGACGAGGTGCGTACGGGGTGGTGGAGAAGATGCGTCACGTGCCCAGCGGGCAGATCATGGCGGTGAAG
Seq A exon
GTAGAGTTGACATTCCGCAAAGCGTTCTATGTCTTCAGTGTGTGTGCTTGCCCATCTCGACTGTGAATGGCCGTTTATTTTTTATTCCAGAAGCAAAACAACCCACAATAGACTACAAAAAAAAAACAAAACAAAAAACAAAAAACAAAGAAGTACTCTTTTTGTGGATCTTGAGCTTTGAGGAAGGTGTTCTGTTGGCCTGAGTCATATCAACTTTTTTTAAAATTATTTATTTTATATATATGAGTACACTGCAGCTCTTCAGACACACCAGAAGAGGACATTGAATCCCATTACAGATGGTTGTGAGACACGATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCGAGGCATATCAACTTTATATTTATTTTCTAAGTCTTCCTTGTCTCCCACTTTTAAGTTTTTAAAGAATTTTTTTTGAGAGAGAGAGAGAAGGGGGGGCAGACAGACAGACAGACAGACAGACACTATATGCCCACAGATACAGGCACACTTGGAGGCATAAGATCCCCTGGAGCTGGAATGATAGGCAATTGTGAACCACTTTGATTTGGGGCCAGGAATTGAAAATTGCTCATTTTCTACAAGCATAGTATGATAGTATGTGCTGATAACCATGGAGACTTCTCTTTAGTCCCTGTTACTGTGTAACTGATTACACTTTAAATTATTTATAGTATTTTAAAAACCTCATCTAATACTAGTCCGAATAAAATTTTCTTGATTATATCAAAGTGTAGTTATTTCTGCTGTTTTTTTTTTTTTAATAAAATCAGATCCTAAACAAAAGGTTCTTTAATTGCATAGTGTGCTGGTTTGAAAGAAACATCCCTCGAAAATCAAGAAGCAATTTGTAGGGAAAGGAAGGTAAAATGTGTCTAGTGTTGATTACGTAGATTTTGAGCTATGGGCAGATGTTTGGAGTCAGCCTACATGGCTTAAGTGGATTCTGACCAGTCCAGGGGTGACTCATAGAACACGGGAAGCTGTGTGTCCAAATGACAGCAATTTATGTTAGAGACACAATCATCTATATCTTTTGTCATCCAGATTCATCCCAGAATGAATTCCTAAGTCATCCCTAAGGGTGACTATAGCTACAGTACTTCAAGGGTCCCCCAAAGTGGGGATTTTTCACCTTTCCTGCTATTTTATTTTTCTCTTAAAGGTTTATTTATCTTTATTATATGTGTATATATATGCGTGTGCCTGACTGCATGTATGTGCACCGTGTGTGTGCAGTGCCTACAGAGGCCAGGAGAGGGCATCCAACCTCCTGGAACTGAAGTTACAGGCAGTTGTGAGCAGCCATGTGGGTGCTAGGAATTGAACCCGGGTCCCCTAGAAGAGCAGCCAGTGCTCTTAATTGCTGAGCTGTCTCTCCAATCCTAGCCGTTCTCTTTTTCTAAACTATTGGGACAGAGGTAATCAGAGAGTAATCAAGGGTATCACGTTGTGCATCAAACAGACATAAACATTCAACCAGGCTGCTTTTGCAGCTTTGAAATGCTTTTCCACATTCTTGCCCGTTCTCTGACCTGCACTGTTGTTGTTTGCTTCTAAGCAGGGGCTGGTCAGGAAGTCAAATGGTCAGCCATCTTCTGTTGTCTTATCATTTATTCATGTTCAGAGATGCTGAGGGTTAGGTTTCTGAGAACAGTGTGATGTTTGATTCTGTCATTAGAATGGGGCTTTGGTGGCGCCCTGGTTTTTCAGGTGACTGTTCCTCAGAGTAGTAACCATCTGTTGTTTAATATGTGTTTCCATTCAG
Seq C2 exon
CGGATACGGGCCACAGTTAATAGCCAGGAGCAGAAACGGCTACTGATGGATCTGGATGTTTCTATGAGGACAGTGGACTGTCCGTTTACCGTGACCTTCTATGGTGCACTCTTCCGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004437:ENSRNOT00000006217:4
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:
PF0006920=Pkinase=PU(11.1=76.3)
A:
NA
C2:
PF0006920=Pkinase=FE(14.9=100)
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:
ACTTTGAGGTGAAGGCCGATG
R:
CCCGGAAGAGTGCACCATAGA
Band lengths:
231-2050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]