HsaINT0090390 @ hg19
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin, beta 1 [Source:HGNC Symbol;Acc:6486]
Coordinates
chr7:107566628-107569650:-
Coord C1 exon
chr7:107569509-107569650
Coord A exon
chr7:107566805-107569508
Coord C2 exon
chr7:107566628-107566804
Length
2704 bp
Sequences
Splice sites
5' ss Seq
TCGGTAGGC
5' ss Score
7.75
3' ss Seq
GAAAATTGACATGCTTTTAGATT
3' ss Score
3.66
Exon sequences
Seq C1 exon
CAAAAGTGCAACAGATGTTAAAGTCACTGCAGATATGGTAAAGGAAGCTCTGGAAGAAGCAGAAAAGGCCCAGGTCGCAGCAGAGAAGGCAATTAAACAAGCAGATGAAGACATTCAAGGAACCCAGAACCTGTTAACTTCG
Seq A exon
GTAGGCATACACAATCATTACATGAATGGGAACACACCTACATATACACTTACCAGAAAAGTACATTTGTTATCTATGAACAGAAATTCTTACAACTCAACATTAAAGGATTCCTTTAATAAATCTAAACTACTCCGTTAGCATGGATGCTAAAAATAAGTGGAGATAGGTTTTCAAGGAATAAAAGGACTCTGATTCAGACACTGGACCATTACGTCCCATCTCATTTTCTCCCCCACAAAGTCTGAGAAAGATAAAAACTTCTATTCTTGGGCGGGCATGGTGGCTCACGCCTGTAATTCCAGCATTTTGGGAGGCCGAGGTGGGTGGGTCATTTGAGGTCAGTAGTTCAAGACCAGCGTGGCCAACATGGCAAAACCCCTTCTCTACTAAAGATACAAAAGTTAGCTGGGCATAGTGGTGTGTGCCTGTAGTCCCAGCTACCTGGGAGGCTAAGGCAGGAGAATTGCTTGAACCGGGGAGGTCGAGGTTGCAATGAGCTGAGATCACACCACTGTACTCCAGTCTGGGCAACAGAGACTCCATCTCAAAAAAAAAAAAAGCACTCCTATTCATTGAGGAAACAGCATATACTCTGTTCAGTAGTATGAAGTATAATAATTTTAGAAAACTGTCCTGATGTTATAAAGCAGCTTATCTGGTTAAGAAGGCCAATGTCTCAAGATTTTGGTCATCAAACATTTTACTATATAGTAGTTTTGGAAACTATGGGAGAACAGTCAGTCTGCTTTCAATACCCAATTCTAGAGAAACCTAATAGAGCACTTATAGCTAAACAATCTGTTCTGTTTAGAATGCATGGAAAACTTAATGTTTTTTATAAGAAATATACTGTGACTACCAGATATTAAAAGTACTCATTACGAATTTTTCATAGGGATCTAGCACCTTGCTCTAAAAATCCTCTTTATCTCTTAAAAGAAGTAATGCAAACATAATTCCATTAAATTCTTTTGTTTCTCAGAAAGTTAATGTTTTCGTTCCAATTTTACGAGTTTTTAAAAAATGAAGAAAATTGATGAGTTATCTAATCCCTATACAGGTTCTCAGAATATACTTTGAAATTAAATGCTCCCATACCCAGCATTGTCAGCCTTCTCAGGCCAATCCTCCATGTGTTTAAAACCTGGGAAGATGAATTTTCAACATGCTTTTCTTACCATTAGTTGGTAAAAACCTGTGTTCCCCTATTCTATTGCTGTCAGTTAAATGAAGGCCAATAATTCTGTCCATTTTCCTCCTTAAATTTCGAGTATCAATAAGACTTTTTCTTCAGGCTATTTGTTCAAGTTTAGAAAAATTATGTTTTCCCACCAGACTATAAATATTTTGATGTTTCGATCTCTAGGTTTTTCCATTTTCTCAGTTTGCTGTTAATATTTTAGTGAATATTATGTCAGTGACTGTAGAAATTATTGTTTTGAAAGCCAGGTGCAGCAGTGTGTGCCTGTAGTCCCAGCCACTTGGGAGGTGGAGGTGAGAGGATCACTTAAGGCCAAGAGTTTGAGACTATAGTGCACTATGATCATGCCTGTAAACAAACAGTCACTGCACTCCAGCCTGGGAAATATAGCAAGACCCTGTTTCTTGAAAAAAATTGTTCTGAAAAGCAAATTAGAAAATACTGAATTATAGGTGAGATGTGGCTTGATGATGCAAGTTAATAATTGGGGTTCTGTTTTTCAGGGGCCCTAGGGGGCAGGAAGTGTTTTAGGTTAGTAACAATAAGAAACAAAGAGAACCTCTAACTAAACTGTGTTCATGAAAGCTTATCAGAAACAATTCACTCAAACTTTATCTTCTAAGAATTATAATTTCTAAGAATTTTATTCTAATTAAAGGGTCCTTAGGTTTGAAATATTTACAAATTTTAGCCTATGTCTTATACTGACCCTTATTAACTTCATTATAGCAGTACTGTTATTCAGTTAATTCTATGTAATTAGACCCATCCTTGAAGATCATTTTAAAGAAAAATTGAGTGCTCAGTGAAATTGATTCTTTTGTCATGGGCTCAACTGCTTACTTTGGCTAGCTTTTAAAAGTCAATGTTTATTGATTCTACTTTGAAAGGAGATCAGATGTGGATCCTCACCAGTTGCCCAGATATTTTTTTTTCCCTAAATAACTTTGTGTATTTAGAGTTTACAGCTGTAACGTTCCCAGACCATACATCATCTCACAATTCTATAGAAATTCAAAGAACATCCCTAGTCTCCATGTCTTCAGTAATTAGCTGAAATCTCCACTACTAGAGTTTAACATTTATTTTCCCACTCACATTAAGTTGGAAATTTATGTGGAAATCCCTCTTCGCACAGCTGCTTATTTGTGAATGTTCTTTAGCCAAAGTTTGCAGGTGTCCTTAAAATGCTTTCTCAACACATCATGCTCCTTGGGGAGGTGGGGTTTTTTGTTTTTTTTTACTGTCAGAAAAAATTTTACATCAATCTCAGCTTAGATCATCAGAAGTACTGAAAGAATGAAGTGAATATATGAAATGTAGCAAAGACTAAAGTTAGATACTTCATGTAACTTTTCCTGAAATATTCTTTTTAGTAATTACTTCTTTTGGTCTAGAGCAAAATGGCACAGCAGACTTTTAAATCTTCCTCCAAACTTGTACTCATAGTAATTCCATTTCTTAAACTAATGTCTTGCTGGAAAATTGACATGCTTTTAG
Seq C2 exon
ATTGAGTCTGAAACAGCAGCTTCTGAGGAAACCTTGTTCAACGCGTCCCAGCGCATCAGCGAGTTAGAGAGGAATGTGGAAGAACTTAAGCGGAAAGCTGCCCAAAACTCCGGGGAGGCAGAATATATTGAAAAAGTAGTATATACTGTGAAGCAAAGTGCAGAAGATGTTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136-LAMB1:NM_002291:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.390
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)