HsaINT0099000 @ hg19
Intron Retention
Gene
ENSG00000108984 | MAP2K6
Description
mitogen-activated protein kinase kinase 6 [Source:HGNC Symbol;Acc:6846]
Coordinates
chr17:67513641-67515573:+
Coord C1 exon
chr17:67513641-67513754
Coord A exon
chr17:67513755-67515453
Coord C2 exon
chr17:67515454-67515573
Length
1699 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TTCCATGCATTTCCATTCAGCGG
3' ss Score
6.56
Exon sequences
Seq C1 exon
AACTTTGAGGTGAAGGCAGATGACCTGGAGCCTATAATGGAACTGGGACGAGGTGCGTACGGGGTGGTGGAGAAGATGCGGCACGTGCCCAGCGGGCAGATCATGGCAGTGAAG
Seq A exon
GTAGAGTTGACATTCTCCCAAATGTTTTATATCTGCTGTGTATACATTTGTCCACCTCAATTGTCAACCAGCCCTTTTAATAGAAGCAAAACCATCTTCCGTAGGGTAAAACAGAAAAGATTATTTGCAGGGAACAGTATTTTCCTCCAAAGGTATGGAAAAGTCTTCCTTGGTGTGAGTTGTATCTACTTTTTATTTGTTTTTTTAACTCTTAACTCTCCCTCCACCCATTCTTCTACCATTTTTAATTTTTACAAAACTACCATGTCATCATCACACTTAAAAATAATTAATGGCCCAGGTGTGGTGGCTCACGCCTGTAATCCTAGCAGTTTGGGAGGCCAAGGCGGGTGGATCACGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATAGTGAAACCTCGTCTCTACTAAAAATACAAAAAATTAGCCAGGCATGGTGGCACACACCTGTAGTCGCAGCTACTTGGGAGGTTGAGGCAGGAGAATCACTTGAACCCGGGAGGTGGAGGTTGTGGTGAGCCGAGATCGTGCCACTGCACTCCGGCCTGGACAACAGAGTGAGACTCCATCTCAAATAATATTAATAATAATAATAATAATAATGATACTTCCTTCATCTAATCCGGAGTCCAAATGAAAATTTCCTTGATCATCTCAAAGTGTGTGTGTTTGTTTTGTCCTGTTGGATTTTCAAATCAGCATCCCAATGAAAGTTTACGTATTGCATTTGGCTGTTATGACTCATAGATCTCTTTTATTCTATATTTTGTTGCTTTTAAAGAATTGCCTCTGAAAATCAAGAAACCAGAATTGGGAGAGAAAATTGTCTCCATTTGTGGAAAAAGGAGGGTAAAATATATCTAGAGTAAATTTGCATAGTTTTTGAGCTATGAAAGGAAATTTAAAATCATTTCATATTATTGAGTAGGTGTTTGGAGGATCATAAAGAATTAACATCTCTAGCTGAGTTAATAGATTGGGGCTATTGTTAGGAATAATCAGGTGACTTGGATCCTTTTGCTTTTAAAGAATGGGAATACTTTTATCTTGTAGATTTTTCAGTCTGTTCTTCTGCTGACTTGCTAAGTAGGCAAAAAGTGTGAAGTCCCAGTGATATTGTATCTCTCCTATCATTTAATGACATAATCATGTTTCTGTAAGGCTACATTTCCTAGTGTGACAGATTGTTCTTCCCTCAGAAGCACTGGGATAGGAATGAACAGTTTCTCTATTTCTCTAATTGCTTCTATTTTGTATAGCTGTACCAATTCTCTTACAGTTGCTGTTCCCTCCAAATACTCTTACATGTTCCCAAAGAAGAGCTTTTGGCTTTTTATTTTCTTGGGACCCCAGATAAGCAGCAAAGTCCTTAATATTGTGCCCTCTTTGCACTGAACAGACATAATACAGTAAACCAGATTGTTTTCATACCTTGGAAATACATTCCAAAACATTTTGTCACTCTCCAAAACACACTATCAATTTGTTTCTTACCAGGACTATTCAGGAAATCAAATGAGTAACAGCCTTCCTTATTTTCATGTGTTACAAATAGCTAATCACTTTGGGTGGCTATTCACAATGTCATCGCCAGAACTTGTGTCATGAACTATTTTCACGATGGGACTCCTTCAGGTCCCTGCCTGCCTCATCCTCAGAGTAGTAACCATAAATTTTCCATGCATTTCCATTCAG
Seq C2 exon
CGGATCCGAGCCACAGTAAATAGCCAGGAACAGAAACGGCTACTGATGGATTTGGATATTTCCATGAGGACGGTGGACTGTCCATTCACTGTCACCTTTTATGGCGCACTGTTTCGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108984-MAP2K6:NM_002758:4
Average complexity
IR-S
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTTGAGGTGAAGGCAGATGAC
R:
CCCGAAACAGTGCGCCATAAA
Band lengths:
231-1930
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)