HsaALTA1042596-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000166159 | LRTM2
Description
leucine rich repeats and transmembrane domains 2 [Source:HGNC Symbol;Acc:HGNC:32443]
Coordinates
chr12:1820267-1827594:+
Coord C1 exon
chr12:1820267-1820814
Coord A exon
chr12:1827407-1827409
Coord C2 exon
chr12:1827410-1827594
Length
3 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GTGTCCCTGTCTCTTCCTAGCAG
3' ss Score
8.7
Exon sequences
Seq C1 exon
TCCCTGTGGTCGGCAGCGATTCATCCACAGGCGCCTTTTTCCACTGAAATGTGAGCGTGGCCAGGGTGAGCGCTGCCCTCGCGGCCGGCCGTGGTGCCTCTGGTGTGCGCCTGTGTGTGCTGCTGCCGCTGTCATCACAGATGCACCCCAGCTGTCACTCCCCGCTCCACTCTGGCTCGCTGCTCGCGCACACGCGTGCGCTCTCCTCCCTCGCCCCTTTCTTCCCTCTCTCCTCTCTCTCTCTCCCTCCATCCCTCTCTTTCCTTCTCAGTTTGTGACTGACCCAGCAGCCCCGTCCCCCGTCTGCCACAAGCAGTCCACCTCCTGGTGCTGTGTGCTGCGTGCCAGCCGCTGCTCCCGCTGAGTGGAGACTCTGGCACCAGTGCCCACTGCGCTCTGCCTGCCGGTGGTGTCTGGATTTCTATAGGAATCCCAGGAGGGTCTTACTGGAGGGTTGAGAGCCACCTGATTGAAGGCGTTTGCAGTCAGAGTAAAGACGG
Seq A exon
CAG
Seq C2 exon
CTGCCGCAGCATGAACCCCTGAGCTGATGAGTCTTATTATAGCCCGGCTGGCGGAAGACAGAGTGCTGCTATTCACCTCTGCGTGGGCGTCGGTGGTGCAGGGGGAAGCAGCAGGCCATCCAGCGGCTCACACCCTACGCGGCTGCAGCTGCCAAGGGCCTGGCCCCTGCCTCCCTCGGGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166159-0-4,0-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
CAGGAGGGTCTTACTGGAGGG
R:
ACTCATCAGCTCAGGGGTTCA
Band lengths:
99-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains