GgaINT1021181 @ galGal4
Intron Retention
Gene
ENSGALG00000028622 | PEAR1
Description
platelet endothelial aggregation receptor 1 [Source:HGNC Symbol;Acc:HGNC:33631]
Coordinates
chr25:405858-406292:-
Coord C1 exon
chr25:406164-406292
Coord A exon
chr25:406074-406163
Coord C2 exon
chr25:405858-406073
Length
90 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CCCGTCCCTTACATCTACAGGGA
3' ss Score
10.16
Exon sequences
Seq C1 exon
AGTGCCCCCCCGGGACTTTTGGATTGCAGTGTGAGCAGCTATGCCGCTGTCCCCACAATGCCACCTGCCACCCTGTGAGCGGGACGTGCCCGTGTGCCCCGGGCAGGAGCGGGCCCCACTGTGAGGCTG
Seq A exon
GTGAGTAGGCACAGGGAAGGCTGGGGGCGAGATGGGGACGGCCAGTTCCCCACCTCTCCTAAGGACCGTCCCCGTCCCTTACATCTACAG
Seq C2 exon
GGAACCCCGACCAGCCCTACACCATCGTGCCAGCCCCCCCGTTGGCCTACAGCACGCTGGGGATGGTGGTCAGCCTGGTGGCCCTGGTGGCTCTGCTGGTGGCCGTGGTGGCTGTGGCACTGTGCTACCGCCACCGGCAGAAGGGAAAGGAGAACAGACACCTGGCCGTGGCGTACACAGCAGGACGGACGGACACCTCTGAGTACGTGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028622:ENSGALT00000045144:17
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=0.192
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(30.2=29.5),PF0005319=Laminin_EGF=PU(85.3=65.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(11.8=5.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATTGCAGTGTGAGCAGCTA
R:
CATCCCCAGCGTGCTGTAG
Band lengths:
174-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]