GgaINT0113913 @ galGal4
Intron Retention
Gene
ENSGALG00000015375 | PLCXD2
Description
phosphatidylinositol-specific phospholipase C, X domain containing 2 [Source:HGNC Symbol;Acc:HGNC:26462]
Coordinates
chr1:87804275-87806053:+
Coord C1 exon
chr1:87804275-87804775
Coord A exon
chr1:87804776-87805811
Coord C2 exon
chr1:87805812-87806053
Length
1036 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
ATTTTTCTTGTTTCTGTTAGGTT
3' ss Score
9.45
Exon sequences
Seq C1 exon
AGCTCTTCAAAAACTAACTATTCTTGGCTTTATTTTCTAGGATCACATGATTCTTTCAGCTACTGGGTTGATGAGAAGTCTCCTGTGGGACCAGACCAAGCCACTGCCATCAAACGCCTGGCCAGAATTTCTTTGGTTAAGAAGATAATGAAGAAATGGTCAGTAACTCAAAATCTGACTTTCAAAGAGCAATTGGAAGGTGGAATCCGCTATTTTGATCTCCGTGTATCTTCCAAGCCTGGGGAAATAGGACAGGAGATTTACTTCATACATGGATTGTTTGGCATTAAAGTATGGGATGGACTAATGGAGATTAACACCTTTCTTGAGCAACACCCCAAAGAAGTCATCTTCTTGGATTTCAATCACTTCTATGCCATGGATGACAGCCATCATTTCTTCTTGATCAACAGGATTCGCTCGGCATTTGGATCCAAACTTTGTTGCGTTGAATGTGTAGAATATGTGACGTTACAGTACATGTGGGAAAAGAAGCATCAG
Seq A exon
GTGGGGGAAGGATGATCCATAATTTTTTCTCACAGTCAAAAGATTCAGATTTAAATAGCTAAGCTGGGTAGGATTCACTCTGAGGTATCGGCCCAGGGACACTACTGGTGGCTAATATAAGCTTGCTGAGGACTCATTAAATAGTTAAATGACAGTATTCTCAGTGTCTTGTGTTCCTTACCAATGTTGTTCTCTCCCTGAGAGAGCACGTTATGCTGACTTCTACTGAGGATATGATAAAATGTCATCATTTTGGTGTATTTAAAGTATGCATGGTTCATCATGACTAAGGGAAGCTAAGAAACTTCTAGCTCCTTTGCAGCCATCCACATCTACAGTGGCAGGACTAAATGCCTCTTGTCCACAGACTGAGAGGATGCAATTCCAGTGACTGCACATAATTCTTAAACGCCAAGTTAAGTGAGATTTTTGAGGATTTCCTCTAAACTGGTACTGACTTACAAGTCTGCTAGGGACCAAAAAAGAATCATTTGTAAGACTCGTTTATAACAATGATGCATCTTTGTACTACGCTCTTACAGAAGGCTGCCTTACAAGGCATAAAATACTGATTTCTGATTTAGAGAAGGTTTTGCTGAAAGTCAGACTGACTGTAACAGCATTTCACTCTCCTCTCACTGAATGTTATTAAAATGCGGGATAGCCCAGTGTGCTTTAGCCATTTGACAAAAGTTGCATGGGAGATGTCAAGATAGCTAAAATCCTTAACTTCACTGGTTATGTTCCCTGACAGTGCTCTGAAATGCTTTTTAAGGAGGGTGCTTAGAACTGACATTTCACTATGCTTCTGGCCATCCTTTCATTTTTAAACTGACCCTTAAAGCCTGAAGGAATCCTGTCCCTCACATCTAATACAAATGATCTCCATCCTTTGTTAGTAAATTTATTGATGATCATGACTCAGGAGTAATTTCTTTGCTTTCTCACTGCTGTGCTAGCTCCAGGAGTAATGCATAAGCCAGTACTCCATCCTGTTTCTAATAGCTATTAATTCTATTTTTCTTGTTTCTGTTAG
Seq C2 exon
GTTCTTATTTTCTACCACTACCCCTTGTATCGAGAATTTCCCTTTCTATGGCCAGGGAATAAAATGCCAGCACCATGGGCTAATACGACCAATGTGCACAAGCTCTTACAGTTCCTAGAGACCACTCTTGAGGAACGAAGTCGTTACGGAACTTTTCATGTTTCTCAAGCAATTCTCACTCCTCGGGTGAAAACTATTGCACGACATCTGGTCCGTGGCCTAAAGAACACGCTTGTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015375:ENSGALT00000024806:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034908=Varsurf_PPLC=WD(100=19.2),PF0038814=PI-PLC-X=PU(94.2=77.8)
A:
NA
C2:
PF0038814=PI-PLC-X=PD(4.3=7.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAGCCTGGGGAAATAGGA
R:
CGTATTAGCCCATGGTGCTGG
Band lengths:
357-1393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]