HsaINT0017009 @ hg38
Intron Retention
Gene
ENSG00000132692 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr1:156647508-156648110:+
Coord C1 exon
chr1:156647508-156647682
Coord A exon
chr1:156647683-156647982
Coord C2 exon
chr1:156647983-156648110
Length
300 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
ATTCTGTCCTTCCTCCCTAGGTA
3' ss Score
12.39
Exon sequences
Seq C1 exon
GGGTCGTCTTTCTCTACCGAGAGGGCTCTGCCCGCTATGCTTTCTCCTTTTCTGGGGCCCAGGAGGCCTGTGCCCGCATTGGAGCCCACATCGCCACCCCGGAGCAGCTCTATGCCGCCTACCTTGGGGGCTATGAGCAATGTGATGCTGGCTGGCTGTCGGATCAGACCGTGAG
Seq A exon
GTGGGCAGGGGCTGTGGATTGGGGCTTCTATTGGCCCCTGAGGTGGCCATGGCCCCCCTTCTGCTGGGTGCTGCCTGCTGTGTCAGGCTGGACATGCAGGGCTTTTTGCCTCTGGGGGATGAGGCTGGTCTGAGGAGGGGAGGTGAGGACCCTGAGCATGTGCATCCCTGCAGTGCTAGAAGGACAGCCAGCTGTCAGCAAGTGTCTGCACTGTGGTGGCAGTGGGGTTCAATAGAATCAATATGGGCTGGCTCCCTGGTGAAAGCATCTGTACTAAGTGATTCTGTCCTTCCTCCCTAG
Seq C2 exon
GTATCCCATCCAGACCCCACGAGAGGCCTGTTACGGAGACATGGATGGCTTCCCCGGGGTCCGGAACTATGGTGTGGTGGACCCGGATGACCTCTATGATGTGTACTGTTATGCTGAAGACCTAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000132692:ENST00000329117:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.060
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(0.1=0.0),PF0019312=Xlink=WD(100=98.3)
A:
NA
C2:
PF0019312=Xlink=PD(38.5=84.1),PF0019312=Xlink=PU(0.1=0.0)
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:
GGGTCGTCTTTCTCTACCGAGA
R:
CATTTAGGTCTTCAGCATAACAGT
Band lengths:
303-603
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