RnoINT0088912 @ rn6
Intron Retention
Gene
ENSRNOG00000004437 | Map2k6
Description
mitogen-activated protein kinase kinase 6 [Source:RGD Symbol;Acc:620666]
Coordinates
chr10:98801584-98803208:+
Coord C1 exon
chr10:98801584-98801711
Coord A exon
chr10:98801712-98803130
Coord C2 exon
chr10:98803131-98803208
Length
1419 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
GCTGTCTGTCTCTTTTCCAGCCT
3' ss Score
9.46
Exon sequences
Seq C1 exon
ATGTCAAGCCTTCAAATGTGCTCATTAACACGCTGGGCCAAGTGAAGATGTGTGACTTTGGAATCAGCGGCTACCTGGTAGACTCTGTTGCGAAAACGATCGATGCCGGTTGCAAACCATACATGGCT
Seq A exon
GTAAGTACCTGCACGCAGCATGCATGGCTGCGTGGGTGCTCGCACGTGTCTGGGAAATGCACCTGCTGGCAAAACCGGGCTAGAAAATACGAAATGCGTGCCTAGGATGGAGAATTGGGGTGAATCTCAGGTCTGAGAAAAATCCTGCCTCGTGTCATTTTCTTGAAGGTCTTATGTCAGAAATCATTAACACTTGCTCCAAATATTGTCTTCATCCTTTGAGGTTGCAGTATCAAAATATCATAAACTGGACACCTTACAGAACACAGTTTTAATTTTTTAAATTAGTTTTTTGCTCTGGGAAGTCCAAGATCAAGATATTGGACTCAGTGTGTGGAGAGGGCCTGCTTCTCTTTCTTATTTGAGGCTCCTTGTGTCCTCAAGTGGTGAAGGGAGCAGGGGATCTCTCTAAGGCTTCTTTTATGAGGATACTAACCTCATTCATGAGGAACTTAGACAAATCCATAGCCATCTTATAGAGATAAGGCTTTCTGTCATGGTCACAGATGGGACAAGGTTTTTTTTTTCTATTTGTTAGAAGAATATTTATTTTATTGTATGTGAGTACACTGTAGCTATTTTCAGACCCACCAGAAGAGGGCATTGGTTCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCGGACCTCTGGAAGAGCAGTCAGTGGTTTTAACTGCTAAGCCATCTCTCCAGCCCCAGTGGGATATAGTTTTAACACGTGCATTTCGGGATGGCACAGAGACGCAAACCATAGCATATATATGGGCTTTCAGAATTAGCTCCCAAGGGCATATTATTTGAAAAAGCATGTAAGTACTGTGCATTGCCACTCGGTGTCATACTCAGTGTCACACCCGAGTATTAACTTGATTGCTAAGGATGGGGAAACTTAAATTACCCACACAAGGCAGTTCTGGTCATGACAGAACGTCCAACTGGAGGAACACATTTATCTTGGAAGGGACTTGTGTTTGGGGTTGGAAATTTCTTGTTTGTGTTTGAGTAAAATCCCCGAGGTCTCTTAACATCAGACGGTAGCTACGAACTTCGGCAGGCTAGTGTGCGTTTTGAGCTGTTGATATTTTTACCAGGAATAATTGTAATGGATAGAGAAGGCTTTTGAATGTGTATCTTTGTTCTTCTTAGGGCAATTAAAATTTTTGGGGGGGGGGCGCGTGGATCCGAGTTCATTGCTGCCTCTGAAAAAAAAAGAGGCAGTATAAAAGAGGGAAGCCCTGTGGAGACATTTCATTGAGATTAGCCAGTCTTTTGGCCCTGGAGGCACGTTAACAGAATCAAATAACTCATGTGGCAATGGTACTGTCTCCTCCCGAGTCTTTACTGAGCTACATGGTGTTACAAATCATTTTTCCGTTTCTTAGCTGTCTGTCTCTTTTCCAG
Seq C2 exon
CCTGAACGAATAAATCCAGAGCTCAACCAGAAGGGGTACAGTGTGAAGTCTGACATTTGGAGTCTGGGCATCACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004437:ENSRNOT00000006217:8
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:
PF0006920=Pkinase=FE(16.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.4=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:
ATGTCAAGCCTTCAAATGTGCT
R:
CATGGTGATGCCCAGACTCCA
Band lengths:
206-1625
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]