HsaINT0090384 @ hg38
Intron Retention
Gene
ENSG00000091136 | LAMB1
Description
laminin subunit beta 1 [Source:HGNC Symbol;Acc:HGNC:6486]
Coordinates
chr7:107935415-107937277:-
Coord C1 exon
chr7:107937093-107937277
Coord A exon
chr7:107935657-107937092
Coord C2 exon
chr7:107935415-107935656
Length
1436 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
AATTTCATTTCCTACCCTAGGTG
3' ss Score
9.36
Exon sequences
Seq C1 exon
GAAACTGATTAAAGATGTTACAGAAATGATGGCTCAAGTAGAAGTGAAATTATCTGACACAACTTCCCAAAGCAACAGCACAGCCAAAGAACTGGATTCTCTACAGACAGAAGCCGAAAGCCTAGACAACACTGTGAAAGAACTTGCTGAACAACTGGAATTTATCAAAAACTCAGATATTCGGG
Seq A exon
GTGAGCATTTTTTGGTGCAAATAGTCCCAGACAATGGATTTAACGATATGTCTAACGTTTTAATATAGCACTTTTGGGGAAAAAAAAAAGTTTTCTAATAAATTTTAAAACTTTTGCTCATCCAGTTTCTGGCACAAATGAGGATCAAAGTCCCCATTTTACAAATGTGGGACTTGGGCACAGAGAACCTAAGAGACATAGCAAAGGTCCCACAGAGTGAATGGCAGTAGTTGTATCAGAATGGTATCCATTTCCTGATTTTTTTTTTTTCCCTCCAGTTAGTAGTTTAATCCCCTGGCCTTTTCTTGGAAGGGGGTTCTTTTGAATAGTTAAGGTATTAATACTTCTGCAAATCCTTTCACATTCAAGAATGCTGCTTGGTCAGAAAAAAACTTTTGCAAATCATTATTTATATCATAGACTGTAAAGGATCCTCAGCAAAAAGTGAATGTAGAAATATGTTACATCATACTGTCCAACTATCCATACTGTTTTATGCATGATTGCTTTTGGACTAAAGCTAAAAACATGTCATGCTGTTATATATAATACCGTCATCCCTTGGTATCCATGGGGGATTGGTTCCAGGACCCACTGCAGAAACCAAAATCCACAGGTGGTCAAGTCCGTTATATAAAATGGCACTTGCATATAACCTATGCATATCCTCCTATATACTTCTTTCTTTTTCTCTCTCTCTCTTTCTTTCTTTCTTTAAGAGATGGGCTCTTGCTATGCTGCTCAGGCTGGTCTTGAACTCCTGGACTCAAGTGATCCTCCCGTCTCAGACTTCTGAATAGCTGAGATTATAGAGGTGAACCACCACACCCAGCTTTACTTTTTTCTTTTTTTCCCTTCAGTATATTTAAAAGTAATCTGTAGATTACTTACAATACCTAATACAATGTAAATGCTATGTAAATAGTTGTTATACTTTATTGTTTAGGAAATAATGGCAAGAAAAAAGTCTGTACACATTCAGTACAGATACAACCATTTTTTCCAAATGCTTTCCATCCACAGTTGGTTGAATCCACATATGTGGAACCTACAAATATGGAGGGCTACTATATTAGTCATTTGAGTGGATCCGAATAAAGGATTGAGAAAAGTCATCTAGTCATATAATCTTCAGGCTGCCTGAAACCAGCTATTTATAAAGAACTGGATGTTTGCTTGTGTATAGAAACAAGATTGCATGATTTTCTTAATTTTTCATTTTTCACCCAGATGTTTGCCATACTCGAGCTGGAGTAGGTGCTAATGGGACAAAACATATTCATTGCTCATGAAAACTGTACTTCATAAATATTTTTTCTTGAATTTTAAAACTTTACAGTAAATTTAGGACCCGAAGACACCAAATATAGACACTGCTTGGGGAGGAAGCCTAGTATGATGAGGTTAACTGTGGGCAATTTCATTTCCTACCCTAG
Seq C2 exon
GTGCCTTGGATAGCATTACCAAGTATTTCCAGATGTCTCTTGAGGCAGAGGAGAGGGTGAATGCCTCCACCACAGAACCCAACAGCACTGTGGAGCAGTCAGCCCTCATGAGAGACAGAGTAGAAGACGTGATGATGGAGCGAGAATCCCAGTTCAAGGAAAAACAAGAGGAGCAGGCTCGCCTCCTTGATGAACTGGCAGGCAAGCTACAAAGCCTAGACCTTTCAGCCGCTGCCGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091136:ENST00000222399:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.455 A=NA C2=0.617
Domain overlap (PFAM):
C1:
PF0154413=CorA=PD(47.7=96.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCCCAAAGCAACAGCACA
R:
TAGGCTTTGTAGCTTGCCTGC
Band lengths:
342-1778
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