HsaINT0017004 @ hg19
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:23059]
Coordinates
chr1:156628335-156629320:+
Coord C1 exon
chr1:156628335-156628525
Coord A exon
chr1:156628526-156628818
Coord C2 exon
chr1:156628819-156629320
Length
293 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TGAGTGTGTGTCTTCCCCAGGCC
3' ss Score
10.68
Exon sequences
Seq C1 exon
TGTCCTGTGGGCCGCCACCGGAGCTGCCCCTGGCTCAAGTGTTCGGCCGCCCACGGCTGCGCTATGAGGTGGACACTGTGCTTCGCTACCGGTGCCGGGAAGGACTGGCCCAGCGCAATCTGCCGCTGATCCGATGCCAAGAGAACGGTCGTTGGGAGGCCCCCCAGATCTCCTGTGTGCCCAGAAGACCT
Seq A exon
GTGAGTGCCAGGAAGAGGCAGGTGGGAGTGGGAGACAGTAGCCAACAGTAGCCTTGGACTCCACTTAAAGTCCTGCCTGTCACTGGCCATGTGACCTTGGAGCCATCACTGCCCCTCTCTGAGGCAAAGGGGAAGAGGTGGGCTGGAGGCTCTGGGGTTCCTTCAGTGCTGATGTCTGATAACATGCAGCCCCATTCTGGGCTCTTACGGGCTGAGCAAGAACATCAGAGGGCAGGCTCTGAGGAGAGGAGAAGGAAGAGCCAGGGTGGAGGGTGAGTGTGTGTCTTCCCCAG
Seq C2 exon
GCCCGAGCTCTGCACCCAGAGGAGGACCCAGAAGGACGTCAGGGGAGGCTACTGGGACGCTGGAAGGCGCTGTTGATCCCCCCTTCCAGCCCCATGCCAGGTCCCTAGGGGGCAAGGCCTTGAACACTGCCGGCCACAGCACTGCCCTGTCACCCAAATTTTCCCTCACACCCTGCGCTCCCGCCACCACAGGAAGTGACAACATGACGAGGGGTGGTACTGGAGTCCAGGTGACAGTTCCTGAAGGGGCTTCTGGGAAATACCTAGGAGGCTCCAGCCCAGCCCAGGCCCTCTCCCCCTACCCTGGGCACCAGATCTTCCATCAGGGCCGGAGTAAATCCCTAAGTGCCTCAACTGCCCTCTCCCTGGCAGCCATCTTGTCCCCTCTATTCCTCTAGGGAGCACTGTGCCCACTCTTTCTGGGTTTTCCAAGGGAATGGGCTTGCAGGATGGAGTGTCTGTAAAATCAACAGGAAATAAAACTGTGTATGAGCCCAGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692-BCAN:NM_021948:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.514
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=89.1)
A:
NA
C2:
NO
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:
GCTATGAGGTGGACACTGTGC
R:
CGCAGGGTGTGAGGGAAAATT
Band lengths:
308-601
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)