MmuINT1026372 @ mm10
Intron Retention
Gene
ENSMUSG00000004630 | Pcp2
Description
Purkinje cell protein 2 (L7) [Source:MGI Symbol;Acc:MGI:97508]
Coordinates
chr8:3624786-3625545:-
Coord C1 exon
chr8:3625470-3625545
Coord A exon
chr8:3624901-3625469
Coord C2 exon
chr8:3624786-3624900
Length
569 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CAATCACGTCTGTCCCCAAGGCA
3' ss Score
3.61
Exon sequences
Seq C1 exon
GAGAAAAGTATAGGAGAGATACACAATGGACCAGGAAGAAGAAAAGGGAGAGGGAGGCTCAGACCTTCTAGACAAG
Seq A exon
GTAAGAGGGCTCTGGCTGACTCCACCATCCGCTTCTTGAGGTCTCGGCACCTGTAATTGACAAGATTAATTCATTTATAGGGCATCTAATTAGCAAGCAAGTCTCTGGAGTCCCCTGACCCAGTTACTATAACACACAGGGGGTATAGGTAGGAGAGTATAAGAGCCCCTCCTCAGGGCAAATGAATGGATTCTTAGTACTGTCCCCCAAGAGATAGTAGGTACTAGGATTTAGGGGCACTTCTGAGCCCCATTTCCCTGGTAAGTGTCCCAACCCCCCAAATCAACCCAAGCCTGGTCTCAATCTAGGACAGTGGTAGAATGCTGTCCCTAGAGTCAGTACCATGTGAAATTGTGCTGCAGGCAGGGGCCCCAGGCTGGGAGGTGGGGGTTGGGGGAGTCAGGGGCAGGTCAGGGAAGGAGACTCAGGTTTCATTTAGAGAAATTCTGCAGACCCGTGAGGACTATGGTGAGAGCAGAGATGGGAAGGCAGGCACTGTTTCGGGTGGATGCTGTCTGGAAGACAGGGAAGGCACAGACCAAACTAAACCAATCACGTCTGTCCCCAAG
Seq C2 exon
GCAGGTTCACCGGACCAGGAAGGCTTCTTCAACCTGCTGACCCACGTGCAGGGCGATCGGATGGAGGAGCAGCGCTGTTCCTTGCAGGCTGGGCCAGGCCAGAACCCAGAAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004630:ENSMUST00000136105:1
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=0.986
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0218812=GoLoco=WD(100=59.0)
Other Inclusion 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:
ATAGGAGAGATACACAATGGACCAGG
R:
GGCTTTCTGGGTTCTGGCC
Band lengths:
182-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types