BtaINT0089093 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001609 | MAP2K6
Description
Bos taurus mitogen-activated protein kinase kinase 6 (MAP2K6), mRNA. [Source:RefSeq mRNA;Acc:NM_001034045]
Coordinates
chr19:61721588-61723657:-
Coord C1 exon
chr19:61723580-61723657
Coord A exon
chr19:61721728-61723579
Coord C2 exon
chr19:61721588-61721727
Length
1852 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGTG
5' ss Score
0.33
3' ss Seq
TGTGTACCTCTCCCTTCCAGATC
3' ss Score
11.62
Exon sequences
Seq C1 exon
CCCGAGAGAATAAACCCAGAGCTCAACCAGAAGGGATACAGCGTGAAGTCCGACATCTGGAGTTTGGGCATCACCATG
Seq A exon
GTAGTGTGTGATAATAATTGTGGGCTGGGGGCAGGGAGTATTGGGGCATGAAGCTGCGGTGGGGCAGACCTCAAGAGCAAGAGGTGGACGCCCTTGAAGCTGATCTGAGAGAGCAAGATTGTCCGCAGAGCGGGGCGGCAGAAACACTGAACGGGAACTGGGCAAACCCAGTTCTCTTCATTCCACCTCCAAGGAGTTGTGTGCCCTTGCGTGACGGATGGAGTCACACAGGCTGTCTCGCTGTCCTGAGCTGTAAAACGAGAGGGTCTGGCTGCTGTTCCTGAGAGTTATCCTTAGGGTTTAAATTTAAACTACTCTAATCAAGCATGCAGAGGCTCAGGCTACTCCAAGAGCACGAATCTGTGTGGACCCTGATAGAGCTTTTTTAAAAAATTTTTGTTTTATATCGGAGCGTGTTTTGTTTGTTGCTTAGTTGACTCTTTTCAATCCCATGGACTGTAGCCCGCCAGGCTCCGCTGTCCATGGGATTTCCTAGGCAAGAATACTGGAATGAGTGGCCATTCCCTTCTCCAGGGGACCTTCCTGACCCAGGGACTGAACCCAGGCATTGCAGGCAGATGCTTTGTCCTCTCAGCCATGTAGTTGATCACAATGTGGTGCTGGTTTCAGGTGTACAGTGAAGTGATGCAGTTTACTTGTATCTCTTTTTTTCCAATTCCTTTCCCACTTAGGTTATTACAAAATGTTGAGCCGAGTTCCCTGGGCTGTACAGCAGGCCCTTGTGGGTTGTCTGTTTTAAAGACAGCACTGTGTACATGTCCATCCCAAACTCCCAATCTCTGCCACCCGTCCTAGACGCTAATATGGAGAGCTTTGTATCCAAGACATGGGCTCAGCTTCTCGGAATATGGTTATGAGAGCAGTCTTGGCTGTTGACTGCAGGTATAGCCCCAGCACATACTAACAAACAGGCTCATTTCCTCAGGCACAGCCCTGAAGTTATACACGGTGAGAGCCTGATTTGTAACTCTGCTGATCGTAAATTTTCAGTGGATCACCGAGGTCTGGAAGGATCCATGGTGGTCCTGGTTCCTTCCCAGACACAGCAGCTGAGTAAATCCCGTGAGCTATTTCACGTCCTTGCCCAGAAGGCACGTGATCTTGTAACAGCAAGGCGGCCTTTACTCAAGTCCAAAAACCGAGCAGTCCTTTGGCCCTGTTTGTTTTCATTCCAGCGTGTGGCCAGCAGATGGCAGCAGAGGTAAGCGTCTTCGGGCGAGAAGTGCTTTTTAGACTAAACGTTTGAAAACCTGGCCCCTTTCATCCTGAAGTTGCACACTGCTGGCTCACAGTTTTATGAAGTGCCACACTGGGTTTCAGTGAGGTTATTGTTCAGTCCCTCAGTGGTGTTCGACTCTTTGTGACCCCGTGGACTGCAGCATGCCAGGCCTCCCTGTCCATCACCAGCTGGATGATTACTCAAACTCATGTTCATCAAGTCAGTGATGCTATCCAGCTGTCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCTCAATCTTCCCCAGCGTCAGGGTCTTTCCCAGTGAGTCGGCTCTTCGCATCAGGTGGCCAAAGTACTGGAGCTTCAGCATCAGTCCTTCTGGTGAATATTCCAGGTGGATTTCCTCTTGGTGAGGGGCTGTCTCCCGGACGATGTCACCCCCAGCTCCAGGACGTGGGGGCACACCGCTAGCGAACACGGCATCGTTGGCGTCCCCTCTGCACGTTTCACCGGACTGTCCCCGTCCGGTTGCCCTCCGCCTCCTGGGATGACATGGATGCCCCAGCAGCTGCCCGGTACACAGTAGCCCAGAGTCAGCTCTCACCTCCTGTGTACCTCTCCCTTCCAG
Seq C2 exon
ATCGAGCTGGCCATCCTCCGGTTTCCCTACGACTCGTGGGGGACTCCTTTCCAGCAGCTCAAACAGGTGGTGGAGGAGCCGTCGCCGCAGCTGCCCGCAGACAAGTTCTCCGAAGAGTTTGTTGACTTTACCTCACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001609:ENSBTAT00000002115:9
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=0.064
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGAGAGAATAAACCCAGAGC
R:
CACTGTGAGGTAAAGTCAACAAACT
Band lengths:
218-2070
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]