BtaINT0108626 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008906 | PCP2
Description
Bos taurus Purkinje cell protein 2 (PCP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001080328]
Coordinates
chr7:17700404-17701373:-
Coord C1 exon
chr7:17701249-17701373
Coord A exon
chr7:17700588-17701248
Coord C2 exon
chr7:17700404-17700587
Length
661 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGACCCCTTTGTATCAACAGGAC
3' ss Score
10.39
Exon sequences
Seq C1 exon
AGAGCAGCCCTGCACCCGAGATGGACAGCCTCATGGACATGCTGGCCAATACCCAGGGCCGCCGCATGGATGACCAGCGAGTGACGGTCAGCGCTCTGCCTGGCTTCCAGCCTTTGGGCCCCAAG
Seq A exon
GTAGGTGATGTTCTGCCTGGGCTGAGGAGAGACCAACCAGGCTGAGGCCTTTAACCCTGCCTTCCACCCCCAGCCAGGAGTGCAAGGGGCCCCACCCCCACCTCTGTCCATCCATCATCTGGTAGGAGCACTCATCCTGAGTCCCTGCCAGTCACAAGACCCCGGTGGATCCAATACCCCGGTTCAGAGGGAGGGCAGAGGCCCAGACAGGGCTGAAAAGGGATCGAGGTCATGTCTGGGGCATGTTCAAGTCAGAGACATGGCGAGAACTCACAGCTCCTGAGCCCGAGTGTCTGAGAGCTATGAGGAGGTGACAGAGAATAGACCCCTTCCTGGGAAGGCACCCCGAGGGTGGAGGACAGGTGAGCTTGTGCACAGGATGCATCCAGACCCCCACATGTCCACATCACACATACTTGCCCACAGCTTGGGTTCTGATCAGGACCCCAGTGAGGCCCCCAAGACCCACCAGCCCCAAAATACCACCCTTAATGTTGAGTAACCAAGGAGCACAGAGGCTCAGGGATGGTGGGAGCAGGTAAGGGGAGGGAGGGGAGGTGTGACTCAGCTGCCATCTGCCGCCTCCCTCCAGCGTCTGTGTCCCCCTCTGTTTGGCACTACCCTCGGCCCCTCTCTCTGGTTGACCCCTTTGTATCAACAG
Seq C2 exon
GACGGAGTGCAGAAACGAGCTGGGACCCTCAGTCCCCAACCCCTCCTCACCCCCCAGGACCCAGCTGCTCTCAGCTTCCGTCGGAACAGCAGCCCCCAGCCCCAGACACAAGCCCCCTGAGGACCTGAGGTGTCCTGGGCCCCACTTGGCCCCTGAGAGCCGACAATAAAGCACTTCCATGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008906:ENSBTAT00000011725:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0218812=GoLoco=WD(100=54.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCCTGCACCCGAGAT
R:
CATGGAAGTGCTTTATTGTCGGC
Band lengths:
302-963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]