HsaINT0017008 @ hg19
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:23059]
Coordinates
chr1:156616593-156617474:+
Coord C1 exon
chr1:156616593-156616967
Coord A exon
chr1:156616968-156617299
Coord C2 exon
chr1:156617300-156617474
Length
332 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
GGGTCCTCTCTGCCCCACAGGGG
3' ss Score
8.83
Exon sequences
Seq C1 exon
AGGACCGCGCTTTTCGCGTGCGCATCGCGGGCGACGCGCCACTGCAGGGCGTGCTCGGCGGCGCCCTCACCATCCCTTGCCACGTCCACTACCTGCGGCCACCGCCGAGCCGCCGGGCTGTGCTGGGCTCTCCGCGGGTCAAGTGGACTTTCCTGTCCCGGGGCCGGGAGGCAGAGGTGCTGGTGGCGCGGGGAGTGCGCGTCAAGGTGAACGAGGCCTACCGGTTCCGCGTGGCACTGCCTGCGTACCCAGCGTCGCTCACCGACGTCTCCCTGGCGCTGAGCGAGCTGCGCCCCAACGACTCAGGTATCTATCGCTGTGAGGTCCAGCACGGCATCGATGACAGCAGCGACGCTGTGGAGGTCAAGGTCAAAG
Seq A exon
GTGAGAGGGCAGGGAGGTTCCAGAGGGAGGGAGGGAGGGAGGGAAGGGAGGACTCTTGCCTTCGGGGATCCCACAGTGTGAGAGGGAAGCAAAGGTAGCTGGAAGGCGCAGCCTGGGTTGGAAAAAGAGTGAGGAGACACGGGCCTTTGTTGTCTCCTTTCTCTCTTCAGGTGGAGGACATTCTACCCACAATCTAACTTAAGTCCCTCATGCTGTAGAGTGAGCACAATTGAACTTTATTTACCCTTGTGTACAGAGGAGTGACAAGGAGGGTGAGGGGAGGCCAGCGTGCTGGGTGCTCACCTGGCTCAGGGGTCCTCTCTGCCCCACAG
Seq C2 exon
GGGTCGTCTTTCTCTACCGAGAGGGCTCTGCCCGCTATGCTTTCTCCTTTTCTGGGGCCCAGGAGGCCTGTGCCCGCATTGGAGCCCACATCGCCACCCCGGAGCAGCTCTATGCCGCCTACCTTGGGGGCTATGAGCAATGTGATGCTGGCTGGCTGTCGGATCAGACCGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692-BCAN:NM_198427:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=FE(88.0=100),PF073547=Sp38=PU(54.5=33.3),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0768612=V-set=PD(0.1=0.0),PF073547=Sp38=PD(44.2=57.6),PF0019312=Xlink=WD(100=98.3)
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:
ATCCCTTGCCACGTCCACTA
R:
AAAGGAGAAAGCATAGCGGGC
Band lengths:
354-686
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)