GgaINT0113913 @ galGal3
Intron Retention
Gene
ENSGALG00000015375 | PLCXD2
Description
NA
Coordinates
chr1:91709198-91710563:+
Coord C1 exon
chr1:91709198-91709285
Coord A exon
chr1:91709286-91710321
Coord C2 exon
chr1:91710322-91710563
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
GATTCGCTCGGCATTTGGATCCAAACTTTGTTGCGTTGAATGTGTAGAATATGTGACGTTACAGTACATGTGGGAAAAGAAGCATCAG
Seq A exon
GTGGGGGAAGGATGATCCATAATTTTTTCTCACAGTCAAAAGATTCAGATTTAAATAGCTAAGCTGGGTAGGATTCACTCTGAGGTATCGGCCCAGGGACACTACTGGTGGCTAATATAAGCTTGCTGAGGACTCATTAAATAGTTAAATGACAGTATTCTCAGTGTCTTGTGTTCCTTACCAATGTTGTTCTCTCCCTGAGAGAGCACGTTATGCTGACTTCTACTGAGGATATGATAAAATGTCATCATTTTGGTGTATTTAAAGTATGCATGGTTCATCATGACTAAGGGAAGCTAAGAAACTTCTAGCTCCTTTGCAGCCATCCACATCTACAGTGGCAGGACTAAATGCCTCTTGTCCACAGACTGAGAGGATGCAATTCCAGTGACTGCACATAATTCTTAAACGCCAAGTTAAGTGAGATTTTTGAGGATTTCCTCTAAACTGGTACTGACTTACAAGTCTGCTAGGGACCAAAAAAGAATCATTTGTAAGACTCGTTTATAACAATGATGCATCTTTGTACTACGCTCTTACAGAAGGCTGCCTTACAAGGCATAAAATACTGATTTCTGATTTAGAGAAGGTTTTGCTGAAAGTCAGACTGACTGTAACAGCATTTCACTCTCCTCTCACTGAATGTTATTAAAATGCGGGATAGCCCAGTGTGCTTTAGCCATTTGACAAAAGTTGCATGGGAGATGTCAAGATAGCTAAAATCCTTAACTTCACTGGTTATGTTCCCTGACAGTGCTCTGAAATGCTTTTTAAGGAGGGTGCTTAGAACTGACATTTCACTATGCTTCTGGCCATCCTTTCATTTTTAAACTGACCCTTAAAGCCTGAAGGAATCCTGTCCCTCACATCTAATACAAATGATCTCCATCCTTTGTTAGTAAATTTATTGATGATCATGACTCAGGAGTAATTTCTTTGCTTTCTCACTGCTGTGCTAGCTCCAGGAGTAATGCATAAGCCAGTACTCCATCCTGTTTCTAATAGCTATTAATTCTATTTTTCTTGTTTCTGTTAG
Seq C2 exon
GTTCTTATTTTCTACCACTACCCCTTGTATCGAGAATTTCCCTTTCTATGGCCAGGGAATAAAATGCCAGCACCATGGGCTAATACGACCAATGTGCACAAGCTCTTACAGTTCCTAGAGACCACTCTTGAGGAACGAAGTCGTTACGGAACTTTTCATGTTTCTCAAGCAATTCTCACTCCTCGGGTGAAAACTATTGCACGACATCTGGTCCGTGGCCTAAAGAACACGCTTGTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015375:ENSGALT00000024806:2
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:
NO
A:
NA
C2:
NO
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:
ATTCGCTCGGCATTTGGATCC
R:
AAGCGTGTTCTTTAGGCCACG
Band lengths:
321-1357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]