HsaINT0090392 @ hg38
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr7:107923818-107924389:-
Coord C1 exon
chr7:107924230-107924389
Coord A exon
chr7:107924088-107924229
Coord C2 exon
chr7:107923818-107924087
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
ATATATATATCTCCCCACAGATT
3' ss Score
10.4
Exon sequences
Seq C1 exon
ACTTTAGATGGTGAACTTGATGAAAAGTATAAAAAAGTAGAAAATTTAATTGCCAAAAAAACTGAAGAGTCAGCTGATGCCAGAAGGAAAGCCGAAATGCTACAAAATGAAGCAAAAACTCTTTTAGCTCAAGCAAATAGCAAGCTGCAACTGCTCAAAG
Seq A exon
GTGGGTCTTTTCACACAGGCTTATTTTTTAAATTACTTTAAGGCATCCATAGTTTATTTAAAAGTGAAAAATATATTCACTTTGTCTTGAGATCATCATAGTATAAATTGCTCAGACTTTATATATATATATCTCCCCACAG
Seq C2 exon
ATTTAGAAAGAAAATATGAAGACAATCAAAGATACTTAGAAGATAAAGCTCAAGAATTAGCAAGACTGGAAGGAGAAGTCCGTTCACTCCTAAAGGATATAAGCCAGAAAGTTGCTGTGTATAGCACATGCTTGTAACAGAGGAGAATAAAAAATGGCTGAGGTGAACAAGGTAAAACAACTACATTTTAAAAACTGACTTAATGCTCTTCAAAATAAAACATCACCTATTTAATGTTTTTAATCACATTTTGTATGGAGTTAAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136:ENST00000222399:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.148 A=NA C2=0.000
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:
GATGCCAGAAGGAAAGCCGAA
R:
ACCTTGTTCACCTCAGCCATT
Band lengths:
258-400
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