RnoINT0108371 @ rn6
Intron Retention
Gene
ENSRNOG00000000993 | Pcp2
Description
Purkinje cell protein 2 [Source:RGD Symbol;Acc:1306217]
Coordinates
chr12:2172378-2173717:-
Coord C1 exon
chr12:2173593-2173717
Coord A exon
chr12:2172563-2173592
Coord C2 exon
chr12:2172378-2172562
Length
1030 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
TGACCCTTCTTCATCCACAGGAT
3' ss Score
12.05
Exon sequences
Seq C1 exon
AGGGTGGCCCTGCTCCAGAGATGGACAACCTCATGGATATGCTGGCCAACACCCAGGGCCGCCGCATGGATGACCAGCGTGTAACAGTCAATTCCCTGCCTGGCTTCCAACCTATTGGTCCCAAG
Seq A exon
GTAGGTGATGTCCAGACAACCCGTGGAGACACGTCCCGGTGTAGCTGGTGTAGCTCTCTAAATCTATGCTCCATCTGTAGCCAGATAGGACAGGATCCTATCTCTATACCTGTCTTGAGCTTTGAAAAGGGAGAGCCCAGATAGAGATAGAAAGTGCCACAGGCTTAAGGTCAGGCAGGACTTACGACAGTGTCAGAGCTGTGACTGTAAAGTACAGTTCTTGCTCCAGCATCTGTATATTTGGGAGAGGCCACGCCACGGGGAGAAGACAGGCAGTCTCCCTGGGAGGAAGGCATATGAATGTACACACGTATATATCAATGAAGAGCATGATTCTGTTTGGGGGCGTTCCACTTTATTGTTTCTGAGACAGGGTTTCATGGAGCTCTGGCTGGCCAACGATGACCTTAAACTTCTACTTTTCCAACATGTACATCCTGGGTTCTGGGATTACAGGTGCGAGCCACTGTGAGTGATTTATGTGGTTAGGGATGGAATCCGGGACTTTGATGCAGTCCCTATTAACTGAATCCCGGCCCTGGCCCTATGTCTGTGTACACTGGCAGACACGTTCAGAGGTCCATGTGCAGATGGGTACACGTGCAGGTAGAAGCCAGAGGTTCTTCGGGAGTCATCACCTTGTTATTTGAGATGGGATCCTCCACTGCCCTGGAACTCACCAGGCAGATCAGGTTCCCTAGCTAGGAAGCCCTAGGGACCCTCCTGACTCTCCGTCCTAAGCACTGGGATTACAAGTGCCTGAAGCCACACCTGGCCTCCCAGGATCCAAATGAGATCTTCAAACGAGCACAGCAAGAATTGCAATGACTGAGCTATATTCTCAGCGCCCAACATCTGTTTTAGTATGTAGACCAGGGTGGCTTCAAACTCGAGAAAATCCTCCTGCCTCTGTTTCCTGAGTACTCACGACCACCCTGATTGGCAGACGTAAAGACATGTTGTTTGGAGGTGCCCCTGACTTGCACTTTCCGTGGTCCCCTCCCACCGTCTGACCCTTCTTCATCCACAG
Seq C2 exon
GATGGAATGCAGAAACGACCCGGGACACTCAGCCCTCAACCCCTGCTCAGCCCGCAGGACCCTGCTGCTCTCAGCTTCCGCAGGAACAGTAGCCCCCAGCCCCAGACACAAGCTCCCTGAGAGTTCCAGCCACCCTGGGCCTCCCACTGGCCCCTGAAAGTAATAAAATACTTGGCACTAGCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000993:ENSRNOT00000001313:3
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
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
CCCTGCTCCAGAGATGGACAA
R:
GTCGCTAGTGCCAAGTATTTTAT
Band lengths:
303-1333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]