BtaINT0112690 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013773 | PKP4
Description
Bos taurus plakophilin 4 (PKP4), mRNA. [Source:RefSeq mRNA;Acc:NM_001191491]
Coordinates
chr2:37819421-37822106:-
Coord C1 exon
chr2:37821989-37822106
Coord A exon
chr2:37819550-37821988
Coord C2 exon
chr2:37819421-37819549
Length
2439 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCTCTCACCTGTCCCTTCAGTCG
3' ss Score
8.16
Exon sequences
Seq C1 exon
GATGGGTGGAATCAGAACCATTTTATTACACCTGTGTCAACGTTAGAGCGAGACCGGTTCAAATCGCATCCTTCCTTGTCTACCACCAACCAACAGATGTCACCCGTCATTCAGTCAG
Seq A exon
GTCAGTGGGTAAACGCCCCTCCTAGGTGAGAGCGTGTGACAGAATGTCATTTCCTGTCCAGAGGAGACTGAGCATGCACACTAATTGATTAAGCCTGTCACTTCCAAACACTGAGGGAAGGAGAGTTTGCTCTTCAAACTGAAAGCCTTCTTCAGGAATTACATGTTATTGTAAACAGCAGGCCCACTCTCCTCCTTCCGTTTGAAAGGTTTATGCAAGTTTACACCAACTAGGGTACAAAAGTGGCCCAGCCTCCTCCATAGCATCTGTTACCCCAAGCTTCTGCTTCACTAGGTTTGCCAAGGGGCCTGGGAACCTGCACTTCATAAGCCGACCTGGTGACGCGGATATAGGAGAGTGGAGGAACACACTTTGAGAACCACTAGCTTGTGCCTGAAAATGGTTGCCCTTGTCTGCCTGCTGGCCATAAGTCTGAAATCTCTTCCAAAGTGATTTTTTTAGTTTTCTTGATGAAAACTATTAGAGTCCTTTAGACCCTGGGAGAGCCATGATCTCCCCTTGCATCTTACTTCTCACCAGTTAAACCTCTGTTTGCTGGCTGCACCCAGACCCCAGCATTCAGAGCTCATGGGCAGGCCTTGTAGGTGGCTTTACAGGGATTCCCTATGATTTGTAAGTTGGGAGTCTTGGCAACCATGCTACCTACTTATTAGTGGTGTTTAATTTGGTAGAAAGAATGTTTTGAGACTCAACATAATTTTTTTTTTAACATGTAAGAACAGAATATTACCACCAAGTTGATTCAGCCCTGTAAATTTAATTCTTAGCTAAATGAAACAGGAAAAGTAATAAACATCTTTTATTTGGCTTTAAATCTCTCCTTCTGACATATAAATATTATCTGTTGTATTCAATTGTGTTTCTGCTGGCAGTCTTATTTCTCTTGTGGACAAATGTGGCCAAAAAGACTAATATACAACTGGGGGTTCTTGTCGCGTAATTAGATGTCTTCACTTATACCAGGAATTTTTAAAAATTATCTCCACCTACTGCGTGATATATATTTATATCTTAGTTTTTAAATTATGAGTTGTTTTCCTTCAAAAAGACCTCTGCTTGGGTTTTGACACATTCTTGCCGGGCTCCCAGGTATAGCCTGAGGCCATCCTGCTTTATGGAAATGCTCAGGATTCTTTAGGGAACTTGGAAAGAGTGGTGCCAGGGCCAGTGGGAGAGCGGGCTGCTTAACGAAAGGCATGTGTACAGGCAAAAGAGTAATTTCAGACAAATTAGAACATAGTAAGCAACGAACTCGTTTTGAGGACTCAAGATACCCACACTGGACAGTGCTGACGAGCCCCATCCAAGTTCCGAGGTCCCTCTCTGGGTTCCATTTGAAGGTAGGATATAATTCACACTTGTTTCTCGAGTTATTCTGAGGGCTGATCATCCGTCCCTCGGGATTAGTGTGATATCTGTTTATGGGCACATCTCATGTCTTGCTGACATTGATAATAGTGGGAGGCAGGTGAGGATGTCTACCTACCTTCTAGAAAGTAGGATGAGAAGCACATAGACATGGCCCATGCTCAGAATATTTTCTAGGGAAGATATTTTGCCATCAGTCTTCTTCTGAAAGCATCAATGCGTGCAAAACCACCAGTGGCGGGTCTGGGGGCTGCTGCTCTCTTGTGGATCCAGTGAATAAGTGACCATTCTTAATTGTAAGACACTTCAGTACAAGCAAGATGATTCCTTAATGAGAAAAAGAAGATGTGAAGTGTTTTCCTTCAGTGCAAAAATGTCCCACAGGATACCCAAGGGTAGATATGTTGTTATGAAACGTTTGGCTCCAGCTGGATAAAAAAGCTGGACCTTTGTGAAGCTGGGCTTCTCAGCATCCTGAGCTTCTTGATGAGCAGGGCTCACTGAGCTTAAAATTTTCCTGACAGCTGATCACCATAAAAGGAATTATAAATTTCATGGGCTGGGCACTCTTACTCAAACACATTTAGAGATGCAGATATTTTTGGAAATCATCAGAAATCAAAACATGCCATAAAACATCTATTTACTGAAGAGCTATACATTAAGGATAATAGATGGGTGTGTCACAAGCGACTGAACTGAGATCATAAAACAGCAAACGCAACTTTTGCATTAGTCTCAAAGGCCTAAGCAGGTCATTGAGACCCACCATCTCAATGGGGAAACTGCACAACCCCTGTACCACGCTGGGCTCCCAGCGATCTCCGGGGTTGACAGCACTGATCATCACAGTGGCCAGTCTGCAGGCCACCATCCAGGGACCTGGAGTTGGCTGCCCTCCAGTTCTCAGCACCTCTAAGAGCTGACTTTAGTGCTGGCCGCGTCTAATTATTGACCTTTGTTCTTCCAGAAAGGACTTCCTAGAGACACTGACAGTCTGATCCTCTCTTTCTTCTCCTCTCTCCCTCCTCCTCTCACCTGTCCCTTCAG
Seq C2 exon
TCGGCAGCACCTCGTCCTCACCAGCACTGTTAGGAGTCAGAGACCCTCGCTCTGAATACGATAGGACCCAGCCACCTATGCAGTATTACAGTAGCCAAGGGGATGCCACACACAGAGGCCTGTACCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013773:ENSBTAT00000018330:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.625 A=NA C2=0.932
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]