BtaINT0089088 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001609 | MAP2K6
Description
Bos taurus mitogen-activated protein kinase kinase 6 (MAP2K6), mRNA. [Source:RefSeq mRNA;Acc:NM_001034045]
Coordinates
chr19:61730288-61732126:-
Coord C1 exon
chr19:61732013-61732126
Coord A exon
chr19:61730408-61732012
Coord C2 exon
chr19:61730288-61730407
Length
1605 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
3' ss Seq
TTTCCATGCATTCCGATCAGCGG
3' ss Score
5.89
Exon sequences
Seq C1 exon
AACTTTGAGGTGAAGGCGGATGACCTGGAGCCCATCGTGGAGCTGGGCCGGGGGGCGTACGGGGTGGTGGAGAAGATGCGGCACGTGCCCAGCGAGCAGATCATGGCGGTGAAG
Seq A exon
GTAGTGTTCGCGCTCCCCAGACGTTTTCCGGTCCCGGTCCATATGTGTGTCCCTCCCAGCTGCAAATGGGCTCCTTTCACAGAAGCAAGACTATGAGGTCTCACTCTATGGGGTGAGACAGAAAAGCCTATTTGTGGCGAACGATATTTCCCTCCAAATATGTCAAAAATGCCTCCTTGGTATGAGTAGCAGCAACTGGGTCTTTTTGAACTGCTGAATCCTACCCCCTCTTTTTAATTGTTTTATGCAGCCACCACATCGTGCTTCCCCGGTGGCTCGCACTTGCGATGCAGGAGACGTGGGTTTGATCCCTGGGTTGGGAAAATCCCCTAGAGAACGAAATGGCTACTCATGCCAATATTCTTGCCTGGAGAATTCCACAGACAGAGGAGCCTGGTGGGCTCTACAACCCATGGGGTCACAAGAGCCAGACATGACTTAGTGACTGAACCACCACGACCACCAGCCACATCATCACACGTAAAAGAAGCAACAGTACTTCCTCAGTGTCATCCACCACCAGGTCCGAATGAACGTCACCTTGATCGTTTTGTTGTTTTTTCTCCCGTTGGTTTTTCAAATAGGAATCCAGATGCGAGCTTGCACATGGCATTTGGTTTTCTGTCTCATGAGTCTCTTTTTAAGCTTTATTCTGTTGCTTTTAAAGAATCTGTCCCTGAAAATCAGGAAACCCAAACTGAGAGACAAAATTGCCTCCATTTGTGGAAACAGAGGAGGGTAAAGTCATCTTGAGCGAATTTGCATAGTTTTGGAGCTATAAAAAGAAATTTAGAATCATCGCATATTTCTTGAGTAGATGTTGGGAGGACCTTGGAGCGGGCCCAGTGTGTTAATTCTAGATGGGTTGTCAGGCATGTGGATGGTCAGATGACCTGGATTCCTTTTATTTTTTGGAGAATGCTGACATCTTTCCCTTACCTTGTAGATTTTCCAGTTTCATCTCCTGCAGACTCTCTGCTCCGCAGGCAAAAAATGTGAAAGCCTCGTGATACTATATTGTCATTTAATGACACGGTCGTGTTGCCTGTGAGGCTGCGCTTACTGGTGTGGTTAGCCTCTCTTCTCTTAGAAGAGAGAGACATGAACTGTGTCTCCATTTCAGTTCAACTCCTCCTCATCCCATTCCTCAATCAACTGACTCTTCTGCAGTTTCTGTTTAGGGTCCATATATTTTTACCTGTTCATAAAGAGGGAATTTCAGCTTTTTTTTTTTCCCTTGTATGAGCCCAAATCAGCCCCACATCAATGAATACTCTGGCCTCCTTGTGCTAAACCCACATGATAAGTCAGACTGTTTTGTAACTTGGAAATGTCTTCCCAAACATTTGCACACTCTCCGCAGTAGACGATCAGTTTGCTTCTCTCCTAGGGATTATTCAGTACGTCAAGTGAATAACAGTCTTCCTTACTTTTCATTTGTTACAGATAGGCATTCCTTTAGGGTAGGTATTTGAGCAGTTGTTGCTAGAAGCTATGCTGTGAATTTTCCTACTGTTCTTGGGAGGGGATCCTTTGGGGTCCCTGCCTTGTCAACAGACCCATCCTCAGGACAGTAACCATCCATTTTCCATGCATTCCGATCAG
Seq C2 exon
CGGATCCGGGCCACGGTAAACAGCCAAGAGCAGAAGCGGCTCCTGATGGATCTGGATATCTCCATGAGGACCGTGGACTGTCCCTTCACGGTCACCTTTTACGGCGCACTCTTCCGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001609:ENSBTAT00000002115:4
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:
AACTTTGAGGTGAAGGCGGAT
R:
CGGAAGAGTGCGCCGTAAAAG
Band lengths:
230-1835
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]