HsaINT0017008 @ hg38
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr1:156646801-156647682:+
Coord C1 exon
chr1:156646801-156647175
Coord A exon
chr1:156647176-156647507
Coord C2 exon
chr1:156647508-156647682
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:ENST00000329117:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(88.6=98.4),PF0019312=Xlink=PU(0.1=0.0)
A:
NA
C2:
PF0768612=V-set=PD(0.1=0.0),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