HsaINT0090268 @ hg19
Intron Retention
Gene
ENSG00000112769 | LAMA4
Description
laminin, alpha 4 [Source:HGNC Symbol;Acc:6484]
Coordinates
chr6:112454551-112455811:-
Coord C1 exon
chr6:112455669-112455811
Coord A exon
chr6:112454690-112455668
Coord C2 exon
chr6:112454551-112454689
Length
979 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AGGCTGACTTTCTTTTCCAGGGC
3' ss Score
9.07
Exon sequences
Seq C1 exon
ATCTCAATCATTTACCACAATGATAAGAAAATGATCTTGGTAGTTGACAGAAGGCATGTCAAGAGCATGGATAATGAAAAGATGAAAATACCTTTTACAGATATATACATTGGAGGAGCTCCTCCAGAAATCTTACAATCCAG
Seq A exon
GTAAGGCTTTTTGTTAAGTAGCTGTTTGTTCCTAGCAATGTACTGGGCTGGCAACATCCAGGAGAGGTCTAGTAACAGTGTACGCACCCTTACTTGCTACTTTTACACACAGGGACAGGCACAGGTACACACATTCATGTACCTTCAGGCCCTCTGCAGTCAGTCCTCAGGACCTCCTGAAATTAGCATCGCATAGATGTAATCACAGATTTCTTCAATTATTGTATTACTCTTAGAACATGATCTAATGCAGTATTTCTCATCAATAATAGGAACGGTGGAACATGTGTATTGTGTGAAGACAAAACAGCATTTGTCCATTTACTTTTGCTTTAGCCTTAAACCCATTTTGAACTCTCCAATAGCATCTGAGCTACACAAATTTTTAAGGTTATCCAAAGGGTTGTGTATTATGTATAATGAAACATTAAGACACTCCCCTAAACTTTGTTGATTACAGATGTGTTGGAAATAATGCCAAAATGGATTCATTAATGACGTGGATTAATAAAAGTCTGAAGACCTGTGTTCAAATCCTAACATCACTTGTGACATAAGAGAATAATTTATTTCTTAGTTTCATTTCTTAGTTTCATTACGTTAAACCCTGTGAAATTACTAAGAATTGATTATATTTCTGTGTAACATGTTAGTTCCTATGATTCAACCTAATAATCGTCTGCTAAAGGGAAATCATAGCATCTCCATCTATTTCACTGAATTGTTATAAAGATAAAATGAGATAATGTAAGTTAGAGCATTTTGAAAACTGTAAGGAAGAAATTGGCTTGACGTAGAACAAAACTCTTCTATAGGCAAAGATTAGACATTGCTGTGTGCCTATCAAAGAAAGCATGAGAATATGAATGATTATAAAGCCATTACAAATGACTATAAATAAATGCAAATTCCATAGCCTACATATGCAGGGTAACATCATCATCATGGCTGTATCAGTGAGGCTGACTTTCTTTTCCAG
Seq C2 exon
GGCCCTCAGAGCACACCTTCCCCTAGATATCAACTTCAGAGGATGCATGAAGGGCTTCCAGTTCCAAAAGAAGGACTTCAATTTACTGGAGCAGACAGAAACCCTGGGAGTTGGTTATGGATGCCCAGAAGACTCACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112769-LAMA4:NM_002290:26
Average complexity
IR-S
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:
PF0221019=Laminin_G_2=FE(35.6=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(18.2=51.1)
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:
CCACAATGATAAGAAAATGATCTTGG
R:
AGTGAGTCTTCTGGGCATCCA
Band lengths:
267-1246
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)