HsaALTA0004693-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000058085 | LAMC2
Description
laminin subunit gamma 2 [Source:HGNC Symbol;Acc:HGNC:6493]
Coordinates
chr1:183240040-183240379:+
Coord C1 exon
chr1:183240040-183240198
Coord A exon
chr1:183240292-183240301
Coord C2 exon
chr1:183240302-183240379
Length
10 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTGTGCTTATTTGTCCTCAGGTG
3' ss Score
11.16
Exon sequences
Seq C1 exon
GAGATTGGGAGTCTGAACTTGGAAGCCAATGTGACAGCAGATGGAGCCTTGGCCATGGAAAAGGGACTGGCCTCTCTGAAGAGTGAGATGAGGGAAGTGGAAGGAGAGCTGGAAAGGAAGGAGCTGGAGTTTGACACGAATATGGATGCAGTACAGATG
Seq A exon
GTGATTACAG
Seq C2 exon
AAGCCCAGAAGGTTGATACCAGAGCCAAGAACGCTGGGGTTACAATCCAAGACACACTCAACACATTAGACGGCCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000058085-34-38,34-37-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.311 A=NA C2=0.145
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCTGGAAAGGAAGGAGCT
R:
TTGTAACCCCAGCGTTCTTGG
Band lengths:
100-110
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