HsaINT0038168 @ hg38
Intron Retention
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31686091-31686279:-
Coord C1 exon
chr1:31686244-31686279
Coord A exon
chr1:31686136-31686243
Coord C2 exon
chr1:31686091-31686135
Length
108 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
TGTAGCGTCTTAACATGCAGGGG
3' ss Score
6.21
Exon sequences
Seq C1 exon
GGTAACTTCGGGGAGGCAGGGCCAGCTGGCAGTCCA
Seq A exon
GTAAGTATGTTTTGGATGGCAACAGCTTGGGAGAGGACAAGGTGGGAGGGGCTGATAGGCATGGCCCTGGCAGATGCTGGGCATTACCTGTAGCGTCTTAACATGCAG
Seq C2 exon
GGGCCACCAGGACCAGTGGGGCCAGCAGGCATCAAAGGGGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636:ENST00000373672:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(17.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(22.2=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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