DreINT0115517 @ danRer10
Intron Retention
Gene
ENSDARG00000088798 | plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-131127-240]
Coordinates
chr6:37486714-37487150:-
Coord C1 exon
chr6:37487022-37487150
Coord A exon
chr6:37486870-37487021
Coord C2 exon
chr6:37486714-37486869
Length
152 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AGTGTATTGTGTCATTTCAGACT
3' ss Score
6.04
Exon sequences
Seq C1 exon
GAGTCTTGCATTAGGGAGCAGTTAGATTGTGGAGTGCGATACTGTGACCTGAGGATTGCACATCGGCCTAATGACAGATCAAATGATCTCTACTTCTACCATGGGGTTTATACCACTATAACTGTGGAG
Seq A exon
GTAAGACAACCAACTGCACAAAATCATACAAGCTTTTCATTTTGTTGTCCAATGTGCTGTAGTTTAAATTTGTTTAATTTGAGTTTAATGTTTAAAGCATGTAAACAAACAGTTTTTTTTTTGAATGTAACCAGTGTATTGTGTCATTTCAG
Seq C2 exon
ACTGTATTAAAAGAGATCAGAGAGTGGTTGGATGTTCACCCAAAAGAAGTGGTCATCCTCTCATTTAGCCACTTCCTGGGCCTCAGTCAAGAGCTTCACTCATTGCTTGTCTCAACTATAAAGAGTGTTTTTGATTCTAAATTGTGCCCTAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088798:ENSDART00000156546:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0038814=PI-PLC-X=FE(31.3=100)
A:
NA
C2:
PF0038814=PI-PLC-X=FE(38.1=100)
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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCTTGCATTAGGGAGCAGT
R:
TGAGACAAGCAATGAGTGAAGCT
Band lengths:
243-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]