GgaINT0035722 @ galGal4
Intron Retention
Gene
ENSGALG00000005816 | BCAR3
Description
breast cancer anti-estrogen resistance 3 [Source:HGNC Symbol;Acc:HGNC:973]
Coordinates
chr8:12809292-12810381:+
Coord C1 exon
chr8:12809292-12809403
Coord A exon
chr8:12809404-12810171
Coord C2 exon
chr8:12810172-12810381
Length
768 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTGTTCTTCTCTATTCCAGAGA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GTCAGCAGGTTAGAACAAACCTGGACCTCTTTAAGACATCATTATACCCAGACTGCCATCATGTATGAAAAACAGCTGAAGCCATTCAGCAAAGCTTTGCATGAAGGACAAG
Seq A exon
GTAAGTGGAATAATGAGCATGGATTTGATGCTGTTTGGTTTAGCTTTTTAACTCTGCCACCGCCACTTGCCTGTGGAAGGAGACAAGCTGCTGTTTTGACAGCTGTGTATCATATATCTAATATGGCTACATAAAGCAGTAAAACACAGTGACATAGAAGGAAACAGTGCGCAAGCAAAACATGAGTATATATGTGACTGTGTGCATGCATCCTTGCAGAATCTAACACTGTCTGCTCAGCCCCTCCTCCTCCTTTGTGGAAAATGCAGTGGAGCAGAAACCAAGGAGCATAACTGTGCAAAATCTTGCCTCAAAGTCAGGATAAAAATCTCCCTCTCCTTCTACAAGGAAAGTTATTTGTTTTCTGTGTGCTTTGCCCACTGGATCAGAGGATGAATGCTGGAATACAAAGAATGGGTTAGTCACAGAATTCCTTTGATTACTTCATCAGGTGCTCTTAGCAGCTCCGATCTCCATAGGGGTGCAAGGGGGAGGGATGTTTCTCTGAACACTTCTGTGGCTAAGAGAACAGGTGGAAATATAAAACTTTTTAGTCCCACAGTACTTGCTGTGGTTTATCTTATTTTGGCCCTCTCCCCCAAGCCAAGCAACTTACTAGAAACTGGTAAGAAAGAATGTATCAGAAGTGAGGTTCTAGTTTTATAACATGTAAGATAAATGCCAGTTTCTGACTTAGAAGAGAATACTGCATTTACAATACTTAACATTTTCATAATGTCTGATATGGTTTGTTCTTCTCTATTCCAG
Seq C2 exon
AGATGGTCAGTGTTCCACAGAACCTAACGTTGCCACTGCTCATGCCTCTTGTTACCTTGATGGAGCGACAAGCTGTCATTTTTGAAGGGATGGATCTGTGGGAAAGCAGTGACCAAAGCTGTGAAATAATGTTCAAGCACTTGACCACAGCTCGTCAGATAGCCCAGAATGCAGAAATGTACAGCCTGACTGCACAACGGATGCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005816:ENSGALT00000009337:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0061714=RasGEF=FE(17.7=100)
A:
NA
C2:
PF0061714=RasGEF=PD(27.3=80.3)
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:
GGTTAGAACAAACCTGGACCTCT
R:
AGCATCCGTTGTGCAGTCAG
Band lengths:
310-1078
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]