HsaINT0090386 @ hg19
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:6486]
Coordinates
chr7:107571801-107572822:-
Coord C1 exon
chr7:107572619-107572822
Coord A exon
chr7:107571946-107572618
Coord C2 exon
chr7:107571801-107571945
Length
673 bp
Sequences
Splice sites
5' ss Seq
ATGGTAACT
5' ss Score
6.06
3' ss Seq
AATTTATTCTTCATATTTAGGTC
3' ss Score
9.38
Exon sequences
Seq C1 exon
ACCTGTGGAACACCCCCAGGGGCCTCCTGTTCCGAGACTGAATGTGGCGGGCCAAACTGCAGAACTGACGAAGGAGAGAGGAAGTGTGGGGGGCCTGGCTGTGGTGGTCTGGTTACTGTTGCACACAACGCCTGGCAGAAAGCCATGGACTTGGACCAAGATGTCCTGAGTGCCCTGGCTGAAGTGGAACAGCTCTCCAAGATG
Seq A exon
GTAACTCAGTGGATGGCCTCAGTTTTTGTTATGTATGTTTGCTTTCAGCTGTGGACTAAAGGATCTGAAAGGGAGAAATCAATTCTAAATGCTAACTGAAATGAAAAGGGCATATCACAATCAAATATGAAAGTTCATGTTTCTGTGAGGTCAGAGAAAGAGATGGGGAGATTTTCTTCACAGATAAAGAATTTGCTTTCTCCTCACTCAACACATGCTTTAGAGCAAGATGTTTAAATCTTATACTGGATAATTTGAGATAGCCATCTTACTTTTCTGACTCCAGGGTTATAAATACATCCAGCTGTATGACAAAAACTCTATACTAAGCAATTGAGCATTTATTCTTCTAAAGTGACACACACTTTTTAAGTATTTATGTGGGCACCTGAGAAAAAGACTCAGGACTATTTTATAGGCCAGGAGTTAAAAAACAACTTGAAAAATTTTAAATGCTAGTTCTATTTATATCAGAATACTGTTTAGGAATCTCTATACTGAATACTTGCAGTCTGTAAGATACAATACTTTGTTGAATGGGAGAAAGTTGTTTCCCAGACATATGATTCCAAGTACATAGTTTTTCAACATCATTTTTGAGCCATTTCCAATATTCTGGTCTCCTTTAGAAAGAATGAAAGTCTTCCCTGGGTAATTTATTCTTCATATTTAG
Seq C2 exon
GTCTCTGAAGCAAAACTGAGGGCAGATGAGGCAAAACAAAGTGCTGAAGACATTCTGTTGAAGACAAATGCTACCAAAGAAAAAATGGACAAGAGCAATGAGGAGCTGAGAAATCTAATCAAGCAAATCAGAAACTTTTTGACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136-LAMB1:NM_002291:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.426 A=NA C2=0.551
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCCTCCTGTTCCGAGACTGAA
R:
GGGTCAAAAAGTTTCTGATTTGCT
Band lengths:
328-1001
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)