GgaINT0105044 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79464378-79464850:-
Coord C1 exon
chr1:79464635-79464850
Coord A exon
chr1:79464503-79464634
Coord C2 exon
chr1:79464378-79464502
Length
132 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
ACACTTTCCATCTCTTTTAGACA
3' ss Score
9.4
Exon sequences
Seq C1 exon
GACACTGTTGTTGCCATCCAAGCTTTAGCCCAGTATGGATACCTCACCTTCTCTAAGGAAAGTCATAATACAGTTAAGGTCAACTTCATGGAAATCCCCAAGAAGGCTTTCCAGGTGAATGATGAGAACCGCTTCTTACTGCAGCAAACTTCCCTACCCACTGTTTTGGGGAATTACAGTGTGGAAGTGTATGGCACTGGCTGTGTCTATATGCAG
Seq A exon
GTAAATAAACTGGAAACTCACCACCATCCTGCTGAAGACTAAACAGAAGTCATCTCTGCCTCATTCCTTTCTGTACCTCGTGGCAAAGCCCTCAGAATCTTTGACCATCTTCACACTTTCCATCTCTTTTAG
Seq C2 exon
ACAACCCTGAAATACAACATCCACTTACCGAAGAAAGCTGCTGGATTTTTTCTCTCTGTAGAGCCAGCCAATGTGTCCTGTACCAGCAACTTCCCACTGAAGTTTGACCTTGTCTTCTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:29
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:
PF076789=A2M_comp=PD(5.2=18.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCCATCCAAGCTTTAGCCC
R:
AATCCAGCAGCTTTCTTCGGT
Band lengths:
253-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]