HsaINT0017001 @ hg19
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:23059]
Coordinates
chr1:156626730-156627549:+
Coord C1 exon
chr1:156626730-156626888
Coord A exon
chr1:156626889-156627466
Coord C2 exon
chr1:156627467-156627549
Length
578 bp
Sequences
Splice sites
5' ss Seq
ACAGTGGGC
5' ss Score
-0.09
3' ss Seq
GCACGCCTTCGTCTCCCTAGACC
3' ss Score
9.4
Exon sequences
Seq C1 exon
GCCTCCGCTTCTGCAACCCCGGCTGGGACGCCTTCCAGGGCGCCTGCTACAAGCACTTTTCCACACGAAGGAGCTGGGAGGAGGCAGAGACCCAGTGCCGGATGTACGGCGCGCATCTGGCCAGCATCAGCACACCCGAGGAACAGGACTTCATCAACA
Seq A exon
GTGGGCTGGGAGACAGGGCGGGAGGGGCCCCTGCCATATGCTCTCACTCTCTCTCACTCGCCTAACCGCCTTCCTCATTAACCCATGCACTTATTCCTTGGTTTTCTCAAGCGTGCATTCCCTCACTCATTCGTTCACTCCCCTTCTCATTCTCTCTCCCTTCCCACCCTACGCTTAGGCAGTGGCCTTCGGGAACGGAGAGTGGAGGTTCGCGCAGTAGAGTGCGCCTGTGTGGGCCGGGCCGCCGTGCAGGGGGCCGCCTCCAATCCCTCCAACCTCCCTGCTCTCCGACCTCCGTCGGCCTCCTCCAACTCCAACTCCAATCTTGTTGAAAGTTTTGACTCTTTTTCCAAAACTCCCCTTTTCTAGCCTGGGTTGATATCTTCCTTATTCTCCCACCCCCATTCCCCTGCTTTCCATCTGGCCCTTGAGCAGAGGCTGGGGTAGAAGAACCCGACAAGGGCGGGTGCTGGATCGCGGGGAAGGGTTTCCAAGGCAGTCACCGCAGACCGCCCGGGAGCGGGGAACGGCCGCCATCTGCTGGCGGCTGCGCTCACTGCACGCCTTCGTCTCCCTAG
Seq C2 exon
ACCGGTACCGGGAGTACCAGTGGATCGGACTCAACGACAGGACCATCGAAGGCGACTTCTTGTGGTCGGATGGCGTCCCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692-BCAN:NM_021948:10
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:
PF0005916=Lectin_C=PU(30.2=59.3)
A:
NA
C2:
PF0005916=Lectin_C=FE(25.5=100)
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:
CTCCGCTTCTGCAACCCC
R:
CCATCCGACCACAAGAAGTCG
Band lengths:
230-808
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)