HsaINT0099005 @ hg19
Intron Retention
Gene
ENSG00000108984 | MAP2K6
Description
mitogen-activated protein kinase kinase 6 [Source:HGNC Symbol;Acc:6846]
Coordinates
chr17:67521042-67522850:+
Coord C1 exon
chr17:67521042-67521119
Coord A exon
chr17:67521120-67522710
Coord C2 exon
chr17:67522711-67522850
Length
1591 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGTG
5' ss Score
0.33
3' ss Seq
TTTTTTCTTCTTTTCTCCAGATT
3' ss Score
11.2
Exon sequences
Seq C1 exon
CCTGAAAGAATAAACCCAGAGCTCAACCAGAAGGGATACAGTGTGAAGTCTGACATTTGGAGTCTGGGCATCACGATG
Seq A exon
GTAGTGTATGCCAATCATCATGAACTATGAGGTTGTGGGTAATGAAACTAGAATGAGGTGGACGTTGGGTTCAAGAAACAAATGCCCTAAATGCTGGTTTGGGGCGCCCTCTCCTGCTGAGCTGGTAGGAGATTTTGAGTAATAATTGTTTGTATTGTGGTACAATAAAAACACTGATATGGGATTGGGGAAACCAATCTTTCTCTTGATTCCACCTCTGACGAGCTGTATGCCTTTTTGAGTAATTGTTACAGTCACATGGACTATCTTCCTATCCTCCTCTGTAAAACGAGAGGATCTGACCAGATTCCTTATAGTTTAAAATTAAATTATTCGAGCCAAGGCAAGAAGCTTAAGCTGTGCAAAGAATGCTAATGTGCGTGAACCCTGATAGGGCCGTGTTATCCAGGACATAGACTATGCTTCCCAGGATATTTTTATTGGAGAAGTAGAAGTCAAAGTCTGATCAGGTCAGTGTATTAGTTCGTTTTCACACTGCTGATAAAAGCATCCCCAAGACTGAGTAATTTAAAAGAAAAAGAGGTTTAATGGACTCACAGTTCCATGCAGCTGGGGAGGCCTCACGATCATGGCGGAAGGTGAAAGGCACATCTTATATGGCGGCAGACAAGAGAGAATGAGATGAGACAGCCAAGTGAAAAGGGAGATGCTTCATAAAACCATCAGATCTCGTGAGACTTTTTCACTACCATGAGAACCATAGAACAGTATGGGGGAACCACCCCCATGATTCAATTGTTTCCCACTGGGTCCCTCCCACAACATGTAGGAATTATGGGAGCTACAATTCAAGATGAGATTTGGGTGGGGACACAGCCCAACCGTATCAGTCAGGTATATCCTCAATACATGATAACCAATAGGATGATTTCCTTAGACACAGCCCTAAAGTTATATGATTTATTCATAACTTATTCATAACTTTGGTGATTGTAAATTTCATAACTTTGGTGGTCATACATTTTCAGTGGATCACCAAGGTCTGGAATTATCCACTGTGGTCCTGGCTCCTCCCCAGGCACAGCAGCTGAATAAATCCCATGAGTTATTTCTCCTGCCTGCCCAGAAAGCACATGATCCTGTAATGCAAAGTGGCCTTTTCTCAAGTCCAAAAAAAGATCTGTCATTTGGTTCTAGGTTGCTTTTTCTCCCTGTCATTTCACCAAGGGACCTGAAGGTGGCAGTAGATGCTCGGCTCTGGAAAGATCTTAGGCTGGGAATTACTTGTCAGACCAAACGTTTGAAATCCTCGTAGCTTTACATCCTGAAGTTTAATACGGTTGGCTTACAATTTTTATGAAGTGCCACAGTGGGTTTTAGTGAGGGTCCCCATTTTAGATAGGCTTAAGTGGCTGTGTCTAGTAAGTAATATTTAAAAATCCCTAGCACTAGGAATTTGGGGAAAATTGCTAGAGAACAAATTATTAGTTTATTTCCTGCCCCCCTACCCCTGGACTTATACTTGAACTTTGCCTTGTGTTTCCTGCTGTCTATCCACAAATGAAACGTGGGTGATTCCCTAAAGCAGCCCTGTTGAAACTGTTGTCTCCTTTTTTCTTCTTTTCTCCAG
Seq C2 exon
ATTGAGTTGGCCATCCTTCGATTTCCCTATGATTCATGGGGAACTCCATTTCAGCAGCTCAAACAGGTGGTAGAGGAGCCATCGCCACAACTCCCAGCAGACAAGTTCTCTGCAGAGTTTGTTGACTTTACCTCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108984-MAP2K6:NM_002758:9
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=0.043
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(9.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(17.6=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:
CCTGAAAGAATAAACCCAGAGCTCA
R:
GTGAGGTAAAGTCAACAAACTCTGC
Band lengths:
214-1805
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)