GgaINT0035720 @ galGal4
Intron Retention
Gene
ENSGALG00000005816 | BCAR3
Description
breast cancer anti-estrogen resistance 3 [Source:HGNC Symbol;Acc:HGNC:973]
Coordinates
chr8:12807749-12809145:+
Coord C1 exon
chr8:12807749-12807864
Coord A exon
chr8:12807865-12808973
Coord C2 exon
chr8:12808974-12809145
Length
1109 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
ATGAATTGTTTCACTTGCAGGCA
3' ss Score
9.39
Exon sequences
Seq C1 exon
GTGGCAAGGATACTAGAAGTTTCTGAAGAGATGAGGAGGATTATGGGAGTGAACTCTGGTCTTGAACTCATTACTTTGCCTTATGGACATCAATTGCGCCTGGACCTAATTGAAAG
Seq A exon
GTAAATGTTCCTATTACTCCTTATTTCCAAAGCAGATGGTCCTGAAAAGGACAGAGCATTGTTACTTTGTACTCAACATCACCTCAAAGCATACTTTCTTGTACATTTTTTGACTTTGTGTGTGCAGAAGATAGCTTATCATTTCTTTTTGCAAAAGTAGATTCCTTAAGGTCATAGGGCAACTCTTTGCTTGTAATACTGGGAGGTGGATGCTATGGAAAGCAGGATCCTAGTGTTGCTGAAAATCTTCAGCTCTTTTAATCGTTCCTTTAATCATTCCAAGTTCAGAGGACCTATATTCTAGCTGACCGTGTAAGTGGTTCGTTGGTAGAGAAAACTGATAATTGCCTTTTGCAGATTGGGAAAAGAGCAAAAGAAGACCTAGCAAAGATGGAGTGTGTGTGTTGTGGGTTGTTTTGTTTTGTTTTTTATTATTTTTTTTTTATCAGCAAAGCTTTCTGTAAAAACTGCCCAAGTTAAGGGGGAGTAATTAGGATCTTCTATCCTGATCTAGCTTCTCTGGTTCAGATTTCACTAGTTTGGTTGCTGAAATTTAGGGGGGAGGCCTCAAGATTTGAGTGCAGAAGGAGCCCAATGAATGGGAACTGGGGCTATTATCCACAAAACATTTGGTCATTCATTGCACAAGCAAAATTTTGTGTTCAAAACTTTAGGGTTATTCAGCCAGCCAGCTAACATCCCATAAAGCATTACAGCTCATGTCCTATTCACAAGTGGAGTAAAAGAGAAAAGCAACTCATTTGGCTGGTTCAGGCAGTCATGCTCCGTGTGCCTGATATTGAGTGGGCTTGCCAGCTAACGTTCTACAATACTGACAGGGCACTACCCAGGTTCTGTCTTCCTTGAATGGAATAGCACAGGACTGGCTGCCCATTAATTAATAGTATTGAAGAAAATGTATTAGAACATAAACTCAAAAAACAAACAAAACATATATTCTATATAATGCCATTGCAGCTCTTGATACACAGATGCTGTAAAGAGCGAGTGATACTGAAGTATATCTGAGTTGATCTTCTCTGAACTTATGTACAACATAGTGTATTAATAATTAGTAACCATAGTCATATGAATTGTTTCACTTGCAG
Seq C2 exon
GCACAATACCATGGCAATAGGAATAGCTGTGGATATCTTAGGTTGCACAGGAAATCTGGAAGACAGAGCTGCAACATTAAACAAGATCATCCAAGTCGCAGTGGAGCTGAAGGACTCACTGGGGGATTTGTATGCATTTTCTGCCATTATGAAAGCGCTGGAAATGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005816:ENSGALT00000009337:9
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:
PF0061714=RasGEF=FE(18.2=100)
A:
NA
C2:
PF0061714=RasGEF=FE(27.3=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:
AGAAGTTTCTGAAGAGATGAGGAGGA
R:
TGGCATTTCCAGCGCTTTCAT
Band lengths:
271-1380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]