HsaINT0017046 @ hg19
Intron Retention
Gene
ENSG00000137936 | BCAR3
Description
breast cancer anti-estrogen resistance 3 [Source:HGNC Symbol;Acc:973]
Coordinates
chr1:94032836-94033408:-
Coord C1 exon
chr1:94033297-94033408
Coord A exon
chr1:94033049-94033296
Coord C2 exon
chr1:94032836-94033048
Length
248 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTCTACTCCTTATTCTTCAGAGT
3' ss Score
8.05
Exon sequences
Seq C1 exon
ATCACAAGGTTAGAAAAGACGTGGACTGCTCTGCGGCACCAGTACACCCAAACTGCCATTCTCTATGAGAAACAGCTGAAGCCCTTCAGCAAACTCCTGCATGAAGGCAGAG
Seq A exon
GTGAGCACGTGGGCAGAGCAAGCATGGGGCTACCCCGCTGGGGAGTGGAGTACAAGTACACAGGGCATGTTATGAGGCCCTGAGTTATCTGCAGCACTGTGGATGGCTCATCAGGGCTTTTATCAGATGACAGCGTTGCTTGTAGAAGGCTGCAGTTGCTGTAACAAGACAAGGGCTATGAGTCACCTCATTCTGTGCTTAACTTTGGAAAACATGTGATATGGAAAACTCTACTCCTTATTCTTCAG
Seq C2 exon
AGTCCACATGTGTTCCCCCAAACAATGTATCAGTCCCACTGCTGATGCCGCTTGTGACGTTAATGGAGCGCCAGGCTGTGACTTTTGAAGGAACCGACATGTGGGAAAAAAACGACCAGAGCTGTGAAATCATGCTGAACCATTTGGCAACAGCGCGATTCATGGCCGAGGCTGCAGACAGCTACCGGATGAATGCTGAGAGGATCCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137936-BCAR3:NM_003567:10
Average complexity
IR-S
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(18.9=100)
A:
NA
C2:
PF0061714=RasGEF=PD(22.4=61.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGACGTGGACTGCTCTGC
R:
TCCTCTCAGCATTCATCCGGT
Band lengths:
303-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)