GgaINT0050864 @ galGal3
Intron Retention
Gene
ENSGALG00000011149 | PLA2R1
Description
NA
Coordinates
chr7:23444427-23445402:+
Coord C1 exon
chr7:23444427-23444544
Coord A exon
chr7:23444545-23445271
Coord C2 exon
chr7:23445272-23445402
Length
727 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
ACTTCTGTTTCATTTTCCAGCTT
3' ss Score
10.09
Exon sequences
Seq C1 exon
TGCTTTTTGATACAAATTCCAAAGGATCCAGAGCACCTGAGGAGCTGGTATTCTGCACAGACATTCTGCAGTAGATACGACGGGTCCCTCGCTTCCCTTGAAGATGAACTGGAACAAG
Seq A exon
GTAGAATGCTGAAAATATTTTTAAATAAATAAGATTTCATCTTTGAAGAAACGTTTAATAATAGATACAGGTTTAGGGAAAAAAAATATGCAAATTCCACTCAGGGATACGCTGCTATTAACAAATCAGTAAATGTTTTTCTTTACCACTTTCCCAAAATGTGAAGAACAGAATACCAGGCTGTTGCCAAAACAATCTCATTTTTATTAAGATATGATCTGTAGTTGTAGCACATGAATACTAGGCTAGGAGTGTCAGAGGAGTGTGAGCACCAGCACATTCAGGAACGTTCATAATCTCTACTCATAAAAATCTGAGTTTGAATTTCATACACTTGTAAAACCTATTTGGAGGTGGGAGGAATCTCATTGGCTGTTCTATTTGAGAGATTTTATTTTCCACTAAAACTGAGAGAATTTTTTTTTTTTAATAAGTCAGTACCCTGAATGAAGCTGTACCCCAGCTTAACTTGTTCAAGCTACTGTTGTGATTTCTTGAAGACTTCCTTACTGGGCTAGTTACTGATCCAATTGAAGTTAATCATCTTTACTGAATTTATAGCTGGATGACCGTGAAATGCTTTTCGCATCCTTACTTTCTAATAAGTAGGTAAAGCCACTGGTTGACAATTCCTTTTTTTCAGTGCTTTAATGTGTTGGAAGAAACTTCAGCTATCCCTAACTGGTTACCAATTAAGTAAGCTTGATACTTCTGTTTCATTTTCCAG
Seq C2 exon
CTTTCATAACAATGAATCTATTTGGTCGCAAAACTAGTGTTTGGATAGCTTTCCAGGGTGATGATTATGAAAAATGGATGAATGAAAATCCTCCAAGATATTCCAACTGGTCTCCAATTGAAGCAGTGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011149:ENSGALT00000033111:21
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:
PF0005916=Lectin_C=PU(24.6=70.0)
A:
NA
C2:
PF0005916=Lectin_C=FE(34.2=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGCTTTTTGATACAAATTCCAAAGGA
R:
GCACTGCTTCAATTGGAGACC
Band lengths:
247-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]