GgaINT0035716 @ galGal4
Intron Retention
Gene
ENSGALG00000005816 | BCAR3
Description
breast cancer anti-estrogen resistance 3 [Source:HGNC Symbol;Acc:HGNC:973]
Coordinates
chr8:12801758-12803453:+
Coord C1 exon
chr8:12801758-12801886
Coord A exon
chr8:12801887-12803010
Coord C2 exon
chr8:12803011-12803453
Length
1124 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGTAATCTTTTTCCTTACAGGTA
3' ss Score
12.04
Exon sequences
Seq C1 exon
TTTTCTAAGGAGCGGCAAGTTATGGACAACAGCCCAGAAAAACTGAAGAAAGAGTTAGAGGAAGAGCTGCAGCTAAGCAGTGAAGATCTGCGTAGCCATGCCTGGTACCACGGACGTATTCCTCGGCAG
Seq A exon
GTATGTTATTCCTTATCTTTTTGTTGCCAACAGTGTACTGAGCTTTCATAGGCAAAAATGCACTGAAGTATTACACATGCTTCTAATATCTGCATTAATTTAGCAGAAACATAAGACTTTTTACGGTGAAAGTTATATTTATCACAGCTTGGTGCAAAATGAAGTTAAGAAAGGATTCAGGGAAGACCCTGGTGGAAATTATAAGTATTTCAGGATTTTTTTTTCACTGAATAAAGGCAGAAATTGAGTTTAAACTTTCTATCAGAACCGTATCTGCACATATTGCTCACACAATGCTTTGATTCACTATACTGAGCTGAAATTTAAATGTTCTTTGCTTTCTTTCTTGTGCTTTGATTTCTGGGGAAGAAAAAAGCCCGAAGTCTCAGTAACTTTACTCTGGTCGTTAGGACTGTAGTTAGAAATGCGTTAAAACAGCCGTTCTATTGTAGCTCAGCTTCCAGGAGCGCCTGGAGCTCCCCCTGCGGGCTTCCCCTCTGTGCACCCGGTTCTCAGTGGAGCCACCAGCTGCCTGCTGCCCCATCAATGAGAGCAGACATAGCTGCCGCGTTTGTGACTTCATGTTCATAGTTTATGACATGGAAAGCACTAATTTAATACAGCAAAACAGGACTTTTCTGACTCCTTCCTAGTTTTATGCAGTACTCACGAAGAACAAAAAATGAAAGCTTCTGTCACGCCGGGTAATACTGAAAGCACAATTTCTGGGGTCCTGTAGTAATGATTTCTAAATGTTTGTGTGATTGTATATTCAGATGCTTTAAACTGTAAAATAGAGTCATTGATTTTCTTTCATGTTTTGCTTTCTAGTAGCAAACTAGAAGAAATTTCTTCATGCAAAATTGTATACATTCTTCTGGCTGCTGGGTGTTTTCCAAGAAGCCCCTCCAGATCTTTGCTGTGGGATGACCTCATAATTTTACAATTGGAGACAGAATTTTTCTACCATGCTCTGTGCTTTGCTTTATATTTTCTGACTTTGTCTGTCCTGTCAGGGTAGCCAAATTAAGTCCTATGTTTAAGAGTATTTTGTTGTTTGGTGGTATTTGAATATTTGCTCCCTGATTCTAAAAGAATTTTTTGTGTAATCTTTTTCCTTACAG
Seq C2 exon
GTAGCAGAAGACCTAGTTCAGAGGGATGGAGATTTTCTGATCAGGGATTCTCTTTCCTGTCCTGGGAACTTCGTTCTTACCTGTCAGTGGAAGAATACCTCTCAGCATTTTAAAATCAACAGAACAATTCTAAGATTAAGCGAAGCCTACTGCCGTGTTCAGTATCAGTTTGAACTTGAAAGTTTTGACAGTATCCCTGGCTTAGTTAGATACTATGTTGGGAATCGCACACCAATATCAAAACAGAGTGGAGCAATTATTTTTCAGCCTATCAACAGGACTGTGCCTCTCAGGTGTCTAGAAGAAAAGTATGGCGTAATTCCAGACCGACAGAAAGAGCAAAGTATCCCTGAAGGAAAAACTGAAGCTGCAAAAAGACTGAGTCTTGGTATATCCAGCATGCAGTCCCAGGAGCAGAGCATACCTAGGGGCAATCTTTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005816:ENSGALT00000009337:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.209
Domain overlap (PFAM):
C1:
PF0001719=SH2=PU(9.9=18.6)
A:
NA
C2:
PF0001719=SH2=PD(87.7=48.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGCGGCAAGTTATGGACAA
R:
TTGGTGTGCGATTCCCAACAT
Band lengths:
356-1480
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]