HsaINT0017007 @ hg19
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:23059]
Coordinates
chr1:156615839-156616967:+
Coord C1 exon
chr1:156615839-156615937
Coord A exon
chr1:156615938-156616592
Coord C2 exon
chr1:156616593-156616967
Length
655 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCGGCTCCACCCGTTCACAGAGG
3' ss Score
7.28
Exon sequences
Seq C1 exon
CCTGCAGCATGGCCCAGCTGTTCCTGCCCCTGCTGGCAGCCCTGGTCCTGGCCCAGGCTCCTGCAGCTTTAGCAGATGTTCTGGAAGGAGACAGCTCAG
Seq A exon
GTAAGCAACCCCACTTGGGGTCACCGTCTCTGTCTTGTTCAGCCCTAACCAACTGCTTCCAGGCTTAGGGGCCCCAGGAAGAGAGAGAATTGGAGGGCTGTGGGGAAGCGTCCAGGCTGGAACACTTGGAAATAAGGGCTGAGCTGTGAGCATCTGGTGGGTTGGAGAAATCATGGGGCAGGACTAGGGAAGGGCACTGGGTGCAAGGCTTTGGGCCCCTAAGGTGGAGGATAGGGGATCCTGAAGCTAGGAGGTGGGAAAGGGGTGGAACTGGGAGAAACCCTGAAGGAGGCCCTAAAGGGAGCAGACTGGGAAACTGGGCTGGAGGACTCAGGGGGCGAGGTTGGAGGACCCTGGGGTGTGGTCTAGGAATTTTGGAGAGGAAGTGGAAGACTCTGAGAGCAGGGCAAGGAATCCTGGGGGCTGAATTGACTGGGAGACTTTGGGGGATGGGTCTGGAGACCGTCGGGGTGGTCCTGGAGGACCTAGAGGTAGGGCTGCAGGACCCTGGCCCCTGGCCCCTGGCCCCTGGTCCTAGGGGGGCCGGGGAATCCTGGGGCCGGAAGGAGGGATCCTGGAGCGGGGCTTGGAGGCCACCGGGTGGGACTCTGAGGGTCGACAGCGTTAAGTTCCAGCCGGCTCCACCCGTTCACAG
Seq C2 exon
AGGACCGCGCTTTTCGCGTGCGCATCGCGGGCGACGCGCCACTGCAGGGCGTGCTCGGCGGCGCCCTCACCATCCCTTGCCACGTCCACTACCTGCGGCCACCGCCGAGCCGCCGGGCTGTGCTGGGCTCTCCGCGGGTCAAGTGGACTTTCCTGTCCCGGGGCCGGGAGGCAGAGGTGCTGGTGGCGCGGGGAGTGCGCGTCAAGGTGAACGAGGCCTACCGGTTCCGCGTGGCACTGCCTGCGTACCCAGCGTCGCTCACCGACGTCTCCCTGGCGCTGAGCGAGCTGCGCCCCAACGACTCAGGTATCTATCGCTGTGAGGTCCAGCACGGCATCGATGACAGCAGCGACGCTGTGGAGGTCAAGGTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692-BCAN:NM_198427:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.012
Domain overlap (PFAM):
C1:
PF0768612=V-set=PU(10.7=48.4)
A:
NA
C2:
PF0768612=V-set=FE(88.0=100),PF073547=Sp38=PU(54.5=33.3),PF0019312=Xlink=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCTGGAAGGAGACAGCTCA
R:
GCTGGACCTCACAGCGATAGA
Band lengths:
353-1008
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)