HsaALTA0004694-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000050555 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:6494]
Coordinates
chr9:133952574-133954685:+
Coord C1 exon
chr9:133952574-133952721
Coord A exon
chr9:133954536-133954541
Coord C2 exon
chr9:133954542-133954685
Length
6 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGC
5' ss Score
3.85
3' ss Seq
AGCGCATTGTCTCCCTGCAGCCT
3' ss Score
8.5
Exon sequences
Seq C1 exon
GTACCAGGAGGTCCAGGCGGCCCAGAAAGCACTGAGGACGGCTGTGGCAGAGGTGCTGCCTGAAGCGGAAAGCGTGTTGGCCACCGTGCAGCAAGTTGGCGCAGATACAGCCCCGTACCTGGCCTTGCTGGCTTCCCCGGGAGCTCTG
Seq A exon
CCTCAG
Seq C2 exon
AAGTCCCGGGCTGAAGACCTGGGCCTGAAGGCGAAGGCCCTGGAGAAGACAGTTGCATCATGGCAGCACATGGCCACTGAGGCTGCCCGAACCCTCCAGACTGCTGCCCAGGCGACGCTACGGCAAACAGAACCCCTCACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050555-23-23,23-22-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.390
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
CAGATACAGCCCCGTACCTGG
R:
AACTGTCTTCTCCAGGGCCTT
Band lengths:
101-107
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)