HsaINT0090383 @ hg38
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr7:107937093-107940358:-
Coord C1 exon
chr7:107939989-107940358
Coord A exon
chr7:107937278-107939988
Coord C2 exon
chr7:107937093-107937277
Length
2711 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
GCTTAACTTTCTCTTTACAGGAA
3' ss Score
10.86
Exon sequences
Seq C1 exon
CCTGTGACTGTGACCCCAGGGGCATTGAGACGCCACAGTGTGACCAGTCCACGGGCCAGTGTGTCTGCGTTGAGGGTGTTGAGGGTCCACGCTGTGACAAGTGCACGCGAGGGTACTCGGGGGTCTTCCCTGACTGCACACCCTGCCACCAGTGCTTTGCTCTCTGGGATGTGATCATTGCCGAGCTGACCAACAGGACACACAGATTCCTGGAGAAAGCCAAGGCCTTGAAGATCAGTGGTGTGATCGGGCCTTACCGTGAGACTGTGGACTCGGTGGAGAGGAAAGTCAGCGAGATAAAAGACATCCTGGCGCAGAGCCCCGCAGCAGAGCCACTGAAAAACATTGGGAATCTCTTTGAGGAAGCAGA
Seq A exon
GTAAGTAGTTAATGAGCCAGAGGAATTACTCATAAAGCTGAAAAAATATTGTGAGTTAACAGCAAAGATTTCCTGGCATGGTGCTTCCATCAGGAGGTTTTGTTAGTCCTGTGGGTGAGAACAGATTCTGAGCCATTTATTTTCCAGCAGTCTTGACTGGGCATTTGGGTGAGTGAACGTTGGCACATCAGTGGGGACCAGCCTTCTGGAGGCTGCAGTACAGAATATGCAAGCATTATATTCAGTGCTCCTCCTTGCAAATCATGTTCTAAGTCAGTAAAATGGGAGGAATGCTGGATTTAGAAGACAAAGATCCATAATTGAGTCTTGGCTCTGATGCTAGGCTTGTGAACTTGGATGACTCAATTCCTGAGCCTGTATTTTCTCTCCTGTGGAGAAGGGGTAGGATAATATATGCCATTACCTTATGAAGTAATGAAAGGATTTATATATAAAATAACAACAGGATTGCAGAAAATTATAAATTAAGTATTGCTACTATGGGGGAAATTCCATTACCTCAAAATAAGACTGCTTACTTCAAGTTTTTTCTGCTTCTCCGCCATTAGTCCACCAGACCAGTGCTTCATTCATCTAGTTATAACAGCTGCTCTATGCTGAAAAGTCCTCATCCCACCCCTTCTCTAGGTAATCTTCCCTCTGATTGGACAGTGTTTGTTAGTGGAAGCCTAGAGAATTGACCTTCTCAAGGATCATTTATCTACCCTTTCTCCTACCTCCCCTCTCTTGCCCCTAAACTTCCCAACTCCTTTTGCCAAAAAGGAACCCCCAAAACAGCACAATAAGACCTAAGTGCTAAAGGACAAAAATAGAAAAGGGTATGAGGCATCTGTGCTTCCCTAGATGCTATGGTTTTTTCACTGCAGACTCACCATCTAGGCCTGAGGGGACTGCTTCACAGTTAAATCCTGCACACTGAGGTGTTTATATGACGAAATGACAGTAACATTTTTTGTGTGTGATGAGACTTTAATCAGCACCTTTAAGAAGCCAGAGGGACTTTTCATCTCATACCAGGCATGAGTAGCAGAGGACAGCTGACATTAGCTCAAGCGACTTGAAGGAGGTCCTTCCTAGACCTAGATTTAAAGTAACTGGACCTTGATGTCAAGCCTTGGGTTTTATGCCCAAGACCATGTAGCTGGCCAGAGTGTTAGGAAACGTCTGATGTAGAGTGACAATGCATTTAGTGAGGCATTTTACCTCACTGAAAAGACTAAGCCTCCTAATGTGCAGAGATCACAGTTTTGGCAGGCCGTGGTCCGAATGCAAGCCCATTTAGGAAATGATCCTTGGCCTGGGTCTTAGGCATCTCTGGGAGGAAGAAAAAAATCTGGTGTCCTTTGAGAGCCTGCCAGAAGAGAGATTACATTCCCAAAACAGCTCTGTTTCTACCGTCACTATTCATTTAACTAGACAGATTGTAATAATCACAGGAAAACTAGTTCCATTACTCTTTTTTTTCAACATACTATCCAAGGATACATGTTTTAGGAACCAAAGTGGCCTTATTTTAAAATACGATGTTAGATTTGCTTGTTTTAAAAAAAATTGTATCATTTTATGAGACCTGAGAAGAAATGAAAGCCTTCTGTGAGTCATATAATTAATAAAAGCAAAGCACTGAAAAAAGAAACTATGTATATTAGCCTCAGGAAAAAAAGGCACTGAAATGTAATTTAATCTACCATTTTAAACCATCCCTTTAAGTACTTTTTCTTTGAGTTGGGTTATAGTTTTATCTCAGCCTTACATATCATTTTTCTAATGGCTCCCAACCTTTCAGCATCTTTACATTTTCCTGGTTTTTTATACTATTATATCGCCAAGAAGACAATTACATTCAATTAGGTGAACCAGTAATACCCAGAGGTAAAATCTGCTCAAATATTACTTTCTTTACAATACACATACAACCCTACCCACACCCACCTGGAGCACACTCGCATGTGCACACACACACCCATATCCACACTATGTACACAATAATATACAAATAGATGTCAAAAGTACGGCTTTGTAGGTTTGAAAGTACAGAACAAAATGCAGTTTAGATTCCAAATTAAATACTGTGAAAGCTAAATCTTCTTATTTCATTCTTAGTAGATGCTATTTTCTTATAAAAAATAAAAAGGCTGTTGGTAGAAGGAGGCCCCTCTGACGGAAGAGAGGAGTGTATGAAAGCTGATACTGGTGGCTCCTGTTGTCTTTGTGGCAGGCTATAGGGCTTCCCCTCTGCATGTTCCATCTTGAAGGAGATCCCTGAGGCTTAGGGAAGAATGTTTTGGGCTTGTGGCTGGGAGGCCTAATTGTATAACTGGAGTCATTTATGTCTTCAGTTTTCACAATTGTAAGGGCTTGAAGCTGCCTGTGAATAGAGCCAGAACTCCACACTCTGACCTGTGCTCATCTTACAGCAGAAATTTGGAATCCCTTAAATGGCTTGTCTGCCACAACTCAGCTGAGTGGTACTTCTGTGTTTCTCTCAAAAGTCATTGAACAAAGAAAAATTGTTAGATTTAATACTATCTGTTATAAGGAAAATAAAACTAGCACTTAGGGATGAAATGTTACAAATTACTGAATTGGTTTGAAATTAGTAATGGATACAGTACTAGTAGAAAATATGAAACGTGAAAGTTCTCCCTTGGGTTTATTTTATGTAAGTAAGCTTAACTTTCTCTTTACAG
Seq C2 exon
GAAACTGATTAAAGATGTTACAGAAATGATGGCTCAAGTAGAAGTGAAATTATCTGACACAACTTCCCAAAGCAACAGCACAGCCAAAGAACTGGATTCTCTACAGACAGAAGCCGAAAGCCTAGACAACACTGTGAAAGAACTTGCTGAACAACTGGAATTTATCAAAAACTCAGATATTCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136:ENST00000222399:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.455
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(0.1=0.0),PF0005319=Laminin_EGF=WD(100=41.1),PF0154413=CorA=PU(51.6=53.2)
A:
NA
C2:
PF0154413=CorA=PD(47.7=96.8)
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development