HsaINT0090369 @ hg19
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:6486]
Coordinates
chr7:107613437-107615543:-
Coord C1 exon
chr7:107615431-107615543
Coord A exon
chr7:107613517-107615430
Coord C2 exon
chr7:107613437-107613516
Length
1914 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTTCACGTTTTGTTCTGCAGCCA
3' ss Score
9.49
Exon sequences
Seq C1 exon
CTTGTGCTTGCAATCCTCTGGGAACAATTCCTGGAGGGAATCCTTGTGATTCCGAGACAGGTCACTGCTACTGCAAGCGTCTGGTGACAGGACAGCATTGTGACCAGTGCCTG
Seq A exon
GTAAGTAAATCCTCATTACGTGGGATGGGTGGTTGGTGAGGATGACATGTTTTAATAGAGAAGCCTTTTCGCCATTGTAGAGTCTGCGATCACCCTCACGTGTACGTGTTAAAAGACATGAGTAGACAATGCACACAATAGGAATTACTAATGGATGATTTCACAAGATGTTCACCATCCCTGTTAGAAGTGTAAAGGAAAGCCACAATAAAATACCACTTTTATAGACACAATTAACACAAGTTTTTAAAAATGGGAATGTTTACTATTAGGATATCATGAGGTACTGCTACTTCTTGGCTGCTGGTGGGCATCCATATTGGTTTGTACTTTTGTGAAAAGCATTTTGGAGATACATATCAGTAGCTTGTAGAAATGGGCATACCCTTTGACCCAGTAACCCCACCTCTGGGAATCTATTCTAATGAAATAATCAGAAAATTGGACAAAGATTTATTCTCCAGAAGACTCATTGCATCTTTTATTAATCATAGCAGAAGACTTGGAAACAACAGTGGAAAAATAGTTAAGTGTGGGGACTTCTATACAATGTAATATTTGGTTGCCACTGAAAATGACAATAACATCAGGAAATGCTCATGCTGCTTGCTATATTTAAAAAAAAAAACACACACAGGATATGAATAGTATCTTGATTAAGTAGGAAATAAAATTCATCAAGGAAAACAAAATCTGGAAGGAAATACACCAAAAAGTTCACTGTAATAATTCCAAGTAGGATAATTATGAGATAAGTTTTTAAAAATCTGTATTTTTAATAACATTGTTATACTTTCTAATTTAGGGAGGATTCACTACCCCCAAATTATTACCATTAAATATGTATATTTATATATAATCTTAATATATTCTTAAAGGAGATTTCTGGAAGTCTAAATTGATGAGCCTGGTCAGGTGTGATGACTCATACTTGTAATCTCAGTGCTTTGGGTGGCCAAGGCAGGAGGAATGCTTGAGATCATGAGTTTGAGACCAGCAAGACCCCATCTCTAAAATTTTTTAAAATCATAAATAAAATAGGCTGGGCACAATGGCTCACACCTGTAATCCCACCACTTTGGGAGGCTGAGGCAGGTGGATCACTTGTCAGGAGTTCAAGACTAGCCTGGCCAACATGATGAAACGCCATCTCTACTAAAAATAATAGAAAAATTAGCTGGGTGTGGTGGCACATGCCTGTAATCCCAGCTACTCGGGAGGCTAAGGCAGGAAAATTGCTTGAAACCAGGAGGCGGAGGTTGTAGTGAGCTGGGATCACACCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTTCATCTCAAAAAAATAAATAAAATAAATTGGTGAACCTGTTTTTATATACTCATTTTTGAAGTGCACAGAGCTCCTCTTCCCTACTGTTCCATTTCTCTTTATTTCCATCTCTGGTGCTCTAAAGATCTGATTTCCTCGTGGCTCAGTGGTGAGAATAGTCGTAGCTGTATGCTACATTTCCACATAAATTCTTGGAGGGCTTTCTGTATGGGATTGATGACAGACTGAACTGAGGGCAGATTTAAAGGCCTGCCAAATCCTTGCCATAATTCTCTTACAGCCAGAGTAATTATAATGAGGAAAATTGGTATCTTTACTGCTTGCTCTTCTTAGTTGTTGGATGGAGGTTATCTATAGGGCAGAGCAGCTAGTCTTTGACCTGGCACGATCCTGTGATTGTGAACGGCTCTCTTACGCCAGTGCCTACAGCTCAGGTTTCTTGATTTCAGAATACTCCTTCCTTTTGTTGGCTTTCTGCTTTAATGATGAAAATGAGCATTTGGTGGAACAGCCGAAACAAGCTTTAACTTGCTTGTTGCTGAGTCTGTTGCATAATTACAGAAACCTACCGTTACATGTTTCACGTTTTGTTCTGCAG
Seq C2 exon
CCAGAGCACTGGGGCTTAAGCAATGATTTGGATGGATGTCGACCATGTGACTGTGACCTTGGGGGAGCCTTAAACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136-LAMB1:NM_002291:12
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=PU(72.0=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(24.0=44.4),PF0005319=Laminin_EGF=PU(23.9=40.7)
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:
GTGCTTGCAATCCTCTGGGAA
R:
CTGTTGTTTAAGGCTCCCCCA
Band lengths:
190-2104
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)