HsaALTA1054065-1/2 @ hg38
Alternative 3'ss
Gene
ENSG00000197467 | COL13A1
Description
collagen type XIII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2190]
Coordinates
chr10:69878039-69880553:+
Coord C1 exon
chr10:69878039-69878065
Coord A exon
NA
Coord C2 exon
chr10:69880503-69880553
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCCTTCCTCTCTCCCCGCAGGGG
3' ss Score
14.96
Exon sequences
Seq C1 exon
GGAGTAAAGGGCCAACCAGGCGAGAAG
Seq A exon
NA
Seq C2 exon
GGGTCCCCCGGAGACGCTGGGCTGTCCATCATTGGTCCCCGCGGCCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197467-9-15,9-14-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(15.4=100)
A:
NA
C2:
PF0139113=Collagen=PD(17.4=47.1),PF0139113=Collagen=PU(9.8=35.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
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:
GGAGTAAAGGGCCAACCAGG
R:
TGGACAGCCCAGCGTCTC
Band lengths:
55-144
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains