BtaINT0108624 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008906 | PCP2
Description
Bos taurus Purkinje cell protein 2 (PCP2), mRNA. [Source:RefSeq mRNA;Acc:NM_001080328]
Coordinates
chr7:17701585-17701870:-
Coord C1 exon
chr7:17701832-17701870
Coord A exon
chr7:17701718-17701831
Coord C2 exon
chr7:17701585-17701717
Length
114 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TGAGCATATCTGTTCCCCAGGCT
3' ss Score
6.5
Exon sequences
Seq C1 exon
GGAGCAGCTCTGCAAAGCAGCACATCGGCGGGGACCATG
Seq A exon
GTGAGAGCCACAGAGAAGCTCAGAGCGGGCCCAGGAGCCAGGTGGAAGCTGGCTGACTGGGTTGATGGGTCTCCTGGCTGAGGGTGGGCTGGACTGAGCATATCTGTTCCCCAG
Seq C2 exon
GCTGGCTCCCCAGACCAGGAGGGCTTCTTCAACCTGCTGAGCCACGTGCAGGGCGGCCGGATGGAGGAGCAGCGCTGCTCGCTGCAGGCGGGGCCGGGCCCAGCCTCTGACAGCCGTGAGAGTGGGCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008906:ENSBTAT00000011725:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218812=GoLoco=WD(100=51.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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:
TGCAAAGCAGCACATCGGC
R:
CCTGCTGCCCACTCTCACG
Band lengths:
162-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]