HsaINT0090366 @ hg19
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:6486]
Coordinates
chr7:107643294-107643804:-
Coord C1 exon
chr7:107643556-107643804
Coord A exon
chr7:107643417-107643555
Coord C2 exon
chr7:107643294-107643416
Length
139 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CCTCCTTTCCACCTCTCCAGAAA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GGGACCTGGAAGCGCCCCAGCCCCGCAGCGATCGCAGATTCGGCTTTCAAACAAAAGAGGCGCCCCGGGGGGTGGGACCGGGACCTCACCCGGTCCTCGCAGAGTTGCGGCCGCCCGCCCCTTCAGCCCCGGCTCTCCGTATGCGCATGAGCAGAGGCGCCTCCCTCTGTTCCTCCCAAGGCTAAACTTTCTAATTCCCTTCTTTGGGCTCGGGGGCTCCCGGAGCAGGGCGAGAGCTCGCGTCGCCGG
Seq A exon
GTGAGGAGAACAAAGTGGCTGCACGATTTTCCCCACTTTCCAGCCCACCCCCCGCTTCCGTGGGAGCGACAGGAAATGGAAGGGCGCCTCTTCTCTCTTTGAACATTTGCCTTTTTTCCCCTCCTTTCCACCTCTCCAG
Seq C2 exon
AAAGGAAGACGGGAAGAAAGGGCAGGCGGCTCGGCGGGCGTCTTCTCCACTCCTCTGCCGCGTCCCCGTGGCTGCAGGGAGCCGGCATGGGGCTTCTCCAGTTGCTAGCTTTCAGTTTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136-LAMB1:NM_002291:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGATTCGGCTTTCAAACA
R:
CTGCCCTTTCTTCCCGTCTTC
Band lengths:
242-381
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)