HsaINT0090367 @ hg19
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:6486]
Coordinates
chr7:107615679-107616322:-
Coord C1 exon
chr7:107616134-107616322
Coord A exon
chr7:107615859-107616133
Coord C2 exon
chr7:107615679-107615858
Length
275 bp
Sequences
Splice sites
5' ss Seq
AACGTATGT
5' ss Score
7.69
3' ss Seq
GTGCTTTGCATTCTTCTCAGGAT
3' ss Score
8.65
Exon sequences
Seq C1 exon
AATGTAACTGCAATGAACATTCCATCTCTTGTCACTTTGACATGGCTGTTTACCTGGCCACGGGGAACGTCAGCGGAGGCGTGTGTGATGACTGTCAGCACAACACCATGGGGCGCAACTGTGAGCAGTGCAAGCCGTTTTACTACCAGCACCCAGAGAGGGACATCCGAGATCCTAATTTCTGTGAAC
Seq A exon
GTATGTTGAGAAATGTCACTCACTGTGTGGGACCTACTTCAGATTGCCTTCCAAACTGAATAGTCAGTAGTCTCAGAGCTCATAGTATGAGCAGTAAAGCCAGCATTGTTATTGTAATTGCAGTTGAAGACGCTGGGAGTGGAATTTACTTGGTAGTTGTGCTGCTTTTAGTCGACTTTTGTGAGATTTAGAGGGAGGAAGGGAATATATGTATTTATACAAAGATACATTGAGTTTCCTCCTGATTTTAACCTGGTGCTTTGCATTCTTCTCAG
Seq C2 exon
GATGTACGTGTGACCCAGCTGGCTCTCAAAATGAGGGAATTTGTGACAGCTATACTGATTTTTCTACTGGTCTCATTGCTGGCCAGTGTCGGTGTAAATTAAATGTGGAAGGAGAACATTGTGATGTTTGCAAAGAAGGCTTCTATGATTTAAGCAGTGAAGATCCATTTGGTTGTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136-LAMB1:NM_002291:10
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:
PF0005319=Laminin_EGF=WD(100=95.3)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.1)
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:
TGACATGGCTGTTTACCTGGC
R:
AGCCTTCTTTGCAAACATCACA
Band lengths:
293-568
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)