RnoINT0112995 @ rn6
Intron Retention
Gene
ENSRNOG00000049866 | Plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:RGD Symbol;Acc:1560935]
Coordinates
chr12:52641222-52642124:-
Coord C1 exon
chr12:52641941-52642124
Coord A exon
chr12:52641458-52641940
Coord C2 exon
chr12:52641222-52641457
Length
483 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
ACATGGCGTCACAACCCTAGGTG
3' ss Score
6.26
Exon sequences
Seq C1 exon
GAAGTCCCCACCCTGGGGCAGCTGTGGGCGCGCGAGCAGCAGGTCCTTGTGTCTTACGAGGACGAGGCCACGGTCAGCCGCCATGATGAGCTGTGGCCCGCGATCCCATACTGGTGGGGCAACGCGGTGAAGACCGATGTGCTGTTGCAGTTCCTGGAGACCAAGAAGGGCCATGGACGACCAG
Seq A exon
GTGACGTCACTTGGGGAGGTCGTGGTGACGTCTTAGGTACTCTGAAACAGGGACTTCAGTGCTGTCATCGTGGGGGATGGGGACAACAGTGATGTCATGGGCGTAGAAATGTTAGTGACATTACAGGATGGTGATGATGTCACGGGGACCAGTGACACATGGGATACGGTTCAGTGTGACATCATGTGGGGCAATGGTGATGGCTTATGGGATACGGGGAAGTGCAGTGATGAGGTATCATGCAATGAGGCGGGCGTCTGGCAGGGGATGAGGGCAGACATCGGCGTGGGCGTGAATGGTGCCTGTGGGGATCGGGAGGGCACCTGACAGGTGCACTAGGTGTCATCCTGACACCACAACTACCCTCCCTGATGATGTCCTCAGTCACAAAGGGAGGGGACGAGGTGTCTGCTGTGTTTATGTGGCTGTGTGGTGTGGTTTTCCCTGTGACATCATCCACATAACATGGCGTCACAACCCTAG
Seq C2 exon
GTGGCCTGTTTGTTGCTGGCATCAACGTCACCGAGAACTTGTGCTATGTCCTCCTGCACCCGGGGGACTCCCTGGAGGAGATGACGCGGCGTAGCGTCCCGCTCACCACCCAGTGGGTGCGCGCGCAGCAGCCGGGGCAGCGCCCTCACTGCACCAACATCATCGCGGGTGACTTCGTGGGTGCAGATGGCTTCGTAAGCGACGTCATTAGCTTGAACCAGAAACTAGTGTCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049866:ENSRNOT00000072507:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0038814=PI-PLC-X=PD(11.6=32.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GCAGCAGGTCCTTGTGTCTTA
R:
CTTACGAAGCCATCTGCACCC
Band lengths:
348-831
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]