GgaINT0035721 @ galGal4
Intron Retention
Gene
ENSGALG00000005816 | BCAR3
Description
breast cancer anti-estrogen resistance 3 [Source:HGNC Symbol;Acc:HGNC:973]
Coordinates
chr8:12808974-12809403:+
Coord C1 exon
chr8:12808974-12809145
Coord A exon
chr8:12809146-12809291
Coord C2 exon
chr8:12809292-12809403
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
CTCTAATTTCATTTGAACAGGTC
3' ss Score
7.88
Exon sequences
Seq C1 exon
GCACAATACCATGGCAATAGGAATAGCTGTGGATATCTTAGGTTGCACAGGAAATCTGGAAGACAGAGCTGCAACATTAAACAAGATCATCCAAGTCGCAGTGGAGCTGAAGGACTCACTGGGGGATTTGTATGCATTTTCTGCCATTATGAAAGCGCTGGAAATGCCACAG
Seq A exon
GTGAAAAAAAATCAATTTTCTCTTTACATTCCAAAATGTGCAGTTGTTAGTAGGTTGATTTAAACTAATTCATAAAGTAGCTGCATGTTTTTCCTGTGACTTGCTAGAGTAAAAAAATGTGTATTCCTCTAATTTCATTTGAACAG
Seq C2 exon
GTCAGCAGGTTAGAACAAACCTGGACCTCTTTAAGACATCATTATACCCAGACTGCCATCATGTATGAAAAACAGCTGAAGCCATTCAGCAAAGCTTTGCATGAAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005816:ENSGALT00000009337:10
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=0.026
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(27.3=100)
A:
NA
C2:
PF0061714=RasGEF=FE(17.7=100)
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:
TGGCAATAGGAATAGCTGTGGA
R:
AAGCTTTGCTGAATGGCTTCA
Band lengths:
258-404
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]