HsaINT1017991 @ hg38
Intron Retention
Gene
ENSG00000112769 | LAMA4
Description
laminin subunit alpha 4 [Source:HGNC Symbol;Acc:HGNC:6484]
Coordinates
chr6:112253956-112254715:-
Coord C1 exon
chr6:112254459-112254715
Coord A exon
chr6:112254292-112254458
Coord C2 exon
chr6:112253956-112254291
Length
167 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGC
5' ss Score
4.95
3' ss Seq
CTTTCCCTTTATTTCCTAAGCTG
3' ss Score
6.36
Exon sequences
Seq C1 exon
GAATATTCTTCTGGAGCCCTTGGAGGGGCTCCAAACTGAGAGGGGAGGGAAGACCGCAGGGAAAGGCGGACCTCAGTGTCTGAAAAGCCAGCTTAGAGTGGGAGGGCCTGGGAGTAGAAGGTAAAAAGGGAGTGGTGAGAATGAATGTGAGAAGGAAGCCAGGACAGCGCAGTCCCCAGTCCCGAACGGCCAGGGAGAGGAGGTGGCCTAGCGCTGGCGGGGCTCACCCCAATCCGTCTGCCTTTTGATGCCGTACT
Seq A exon
GTAAGCTCCGTCCATCTGTAGGTTCTTGAGCCAGAACCTCTGCGGGAAGGAGAAAAAGTGAAAGAGGGAGAGGGAGAGGGAGAGAGAGGGGGAGAAGGGGAGAGAGAGAGAGGGAGAGAGAGGCTGGAACTCTCCCTTACTCTCGCACTTTCCCTTTATTTCCTAAG
Seq C2 exon
CTGCTGGTTGCGCAGCCACCTCGGGATACTGCACACGGAGAGGAGGGAAAATAAGCGAGGCACCGCCGCACCACGCGGGAGACCTACGGAGACCCACAGCGCCCGAGCCCTGGAAGAGCACTACTGGATGTCAGCGGAGAAATGGCTTTGAGCTCAGCCTGGCGCTCGGTTCTGCCTCTGTGGCTCCTCTGGAGCGCTGCCTGCTCCCGCGCCGCGTCCGGGGACGACAACGCTTTTCCTTTTGACATTGAAGGGAGCTCAGCGGTTGGCAGGCAAGACCCGCCTGAGACGAGCGAACCCCGCGTGGCTCTGGGACGCCTGCCGCCTGCGGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112769:ENST00000230538:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.315
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAGAAGGAAGCCAGGACA
R:
CGCTGACATCCAGTAGTGCTC
Band lengths:
248-415
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains