GgaINT0050857 @ galGal3
Intron Retention
Gene
ENSGALG00000011149 | PLA2R1
Description
NA
Coordinates
chr7:23438272-23439286:+
Coord C1 exon
chr7:23438272-23438356
Coord A exon
chr7:23438357-23439153
Coord C2 exon
chr7:23439154-23439286
Length
797 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAAT
5' ss Score
-0.64
3' ss Seq
TACAAGTATGCTGTTTTCAGGTT
3' ss Score
5.9
Exon sequences
Seq C1 exon
GACAGAAGAAAGACAGTTCTGGATTGGATTTAATAGAAGAAACCCATTTTCTGGAGGGACGTGGCAGTGGTCTGACAGAACACCT
Seq A exon
GTAAATACCTGTATACTGTGTATTTCAGAAACCTCTCAAGTTTAAGTTCCCAAAAATAAGTCATGTGAACAGATAAATGGTGGCCAGCAAAGCTCTGGTTTGTGGGTGGTTTTTTTTCACATTCACATACTTCAGATAAATGGAGTGATTGTTGCAGTAATATTAGTATTACGTTATTTTTAGTGCCACCTGTACAGAAGAGTTGCAAAATTTCAGAAGGAATTGAGTAGGATTATTAAGATTTGTGCATTTCTGCTTTCCTGCAAAACATGTTGTGATTAGCCCAACATGTGTCACACTGCATTTTAAAAGCTTTCTGAACAAGCATGTGGATTTGGAATTACGCAAAAGGATCAGTTTTTAAACTATAATTGGTTTTCAGTCTTTGGGAATGATGCCAGCCCTGCCATCATTATTTAAGTAATTGCAGAATGCGAGTGCAAAGTCCGGTCATGCAAGGTGCTGAACCAAAGCAAAGGCTGTTAACCTTGGACAACCATTGCTAATCATGTCAAAAAAACTGTCAATTTCATTGCTATAAACTTTATTTTTTACAAAGATGGAGTCTAATATAAGATGGGAAATTGAACAAGACATTACAAAAACATGATTATGGGGCCTGTTTTTAGGATTTTACCACCATAATTCAGGTGTTCCACTAGTTTCCTGGTCTGGAAATTACTTTTCATGTTCTTATCATATATCCATCTTCATACACTTCCTTTTTCTCCATAATAGGATTTTGAAATGCTTAATCTTGAATTGTTGGTGAAAGATTACAAGTATGCTGTTTTCAG
Seq C2 exon
GTTGTAGCTTCATTTCTGGAGAGCAAGTATGTTGAAGATGACTCAAGAAACTGTGGTGTATTCAAAGTAAATAGAACAATTTTTCCAGCACACTGCAATGAAAAGCGTGAATGGATATGCAAAATACCAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011149:ENSGALT00000033111:14
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=FE(25.2=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(36.9=73.2)
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:
GACAGAAGAAAGACAGTTCTGGA
R:
TGGTATTTTGCATATCCATTCACGC
Band lengths:
214-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]