DreINT0115516 @ danRer10
Intron Retention
Gene
ENSDARG00000088798 | plcxd1
Description
phosphatidylinositol-specific phospholipase C, X domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-131127-240]
Coordinates
chr6:37487022-37488093:-
Coord C1 exon
chr6:37487951-37488093
Coord A exon
chr6:37487151-37487950
Coord C2 exon
chr6:37487022-37487150
Length
800 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CTTTACATTATTTACTATAGGAG
3' ss Score
6.48
Exon sequences
Seq C1 exon
GAAGCCATAATGCCATAACTTACTGTCTGGATAAGAATGACCGTTCCCCAGTGGACCTTACCCAACCAGATATGTTGCAAAAGCTGGACAAGTACATGAAACCCATCATAAGACCATTTGTTTACAAGTGGGCAATAGCACAG
Seq A exon
GTATGTAATTGCCCTGACTGACATTAATATTTTATTACGTATTATTTTATATTTAAATTTTTAATTTACTTGATTAATATTTATCATTTTTTTGTCATATTTATCCGTTTTTTTATTCTAACTTCAATGGAATGAATATAATCATCAACATTGATGTTTATTAGGTGTTTTTGTACTTATTACAAAACGTGTTACGCATTAATTATGTATGCATTACTGGAACATCTTTGACAGCATCTTTACAGTTCACATTTCTTTTTAACAAATAGTAAATTGCCTGTATTCATTGAAAGCCCTGGTGATCTTCATATTCATATTTGACATGTTAAATCACTAATACTATACCACAAGAAAGCATAATCAAATCTCTTACCTCCAAATATGTTGACTTTGTCACATTTGAAAAGGCTAAACATAATGCAGTTGTGCTTTGTATGGTATCAAATCCCTGATGAGGTTATAGACCAATTTATGCCAGCATGCATCAGCAGATTCCTGTATTGCACGCGTCTTTAAAATCTATCAGCAAGAGAAGAAATAAATTGCCGTCTGATGTCCTGGAGAAATCCATCAAACACTCAGTGGCTTTGCTATAGCGAAAGCTCAATTAAATTGGATAGTTATGACAAAAGTAACATTGATGGATGGGCAGATTGTCTCAAATCTGTAGGCGCGATACGGAAATTGTATTTCACTTTTAATGCTTCAAACTCTCACTGTTTGTTTCTAGGAAGCCATTCAAGCACTATCGTTGCTGCACCTGCATTGTTAATGATTATGCTTTACATTATTTACTATAG
Seq C2 exon
GAGTCTTGCATTAGGGAGCAGTTAGATTGTGGAGTGCGATACTGTGACCTGAGGATTGCACATCGGCCTAATGACAGATCAAATGATCTCTACTTCTACCATGGGGTTTATACCACTATAACTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088798:ENSDART00000156546:3
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=PU(4.5=12.5)
A:
NA
C2:
PF0038814=PI-PLC-X=FE(31.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
GAAGCCATAATGCCATAACTTACTGT
R:
CCACAGTTATAGTGGTATAAACCCCA
Band lengths:
270-1070
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]