HsaINT0090428 @ hg38
Intron Retention
Gene
ENSG00000172037 | LAMB2
Description
laminin subunit beta 2 [Source:HGNC Symbol;Acc:HGNC:6487]
Coordinates
chr3:49130231-49130860:-
Coord C1 exon
chr3:49130740-49130860
Coord A exon
chr3:49130420-49130739
Coord C2 exon
chr3:49130231-49130419
Length
320 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TGCCCTTCCTCCCCTGCCAGAGT
3' ss Score
9.56
Exon sequences
Seq C1 exon
GTGCACGGAGCTTGCATCTGCAAACACAACACACGTGGCCTCAACTGCGAGCAGTGTCAGGATTTCTATCGTGACCTGCCCTGGCGTCCGGCTGAGGACGGCCATAGTCATGCCTGTAGGA
Seq A exon
GTGAGTGAGATCTTGGCCTCCATAGCTCCAGCACTCTGCAGCCTGGCTGTGCCCTGGGTAGAACCTAGAGCTAGTTGGTCAAGCCCCTAAAACCCAGGCTGTATCCAAAGAGTATGCAGACCTTGATGCCCCTTGGGACCCCCTCAATCCTCCTCTGCAGTCTGCTCTGGGTAGGGAACCAGTATGATGCTGAGGCCTTGAAGTCCCTGAGCCCCTACCCACAAATTCTGGCCTGTGATAGGGATCTAAGGTGGCCTACTTCTTACCCTTGTGACCTGGTTCCTCATGTGGCCTTTGCCCTGCCCTTCCTCCCCTGCCAG
Seq C2 exon
AGTGTGAGTGCCATGGGCACACCCACAGCTGCCACTTCGACATGGCCGTATACCTGGCATCTGGCAATGTGAGTGGAGGTGTGTGTGATGGATGTCAGCATAACACAGCTGGGCGCCACTGTGAGCTCTGTCGGCCCTTCTTCTACCGTGACCCAACCAAGGACCTGCGGGATCCGGCTGTGTGCCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000172037:ENST00000418109:9
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=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(61.3=92.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=95.3)
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:
TGCACGGAGCTTGCATCTG
R:
CAGGTCCTTGGTTGGGTCAC
Band lengths:
287-607
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