HsaINT0038151 @ hg38
Intron Retention
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31694144-31695221:-
Coord C1 exon
chr1:31695186-31695221
Coord A exon
chr1:31694171-31695185
Coord C2 exon
chr1:31694144-31694170
Length
1015 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CCTCTCCTCTGTCCCCTCAGGTC
3' ss Score
13.22
Exon sequences
Seq C1 exon
TGTCCGCCCTGTGTCCATGGTGCCCGGGACAGCAAT
Seq A exon
GTGAGTGAATGGAGGGTGTGCAGGGTGGAGCGGGCAAGAGCCGGGAGTGGACGTTGCCTAGAGCTGGCTTGGCAGCCTCCTGGGTGAGGACAAGGGGGTCTTTGTACACTTTCACACTCGCTCCCTGCCCATCTCCCAGAGCCGGGCTTAACCCCCACTGCCATCTCCACCAAGCCAGGACTGTGTGGAAGAAAGCCTGTGACCTGCCTTGTCATCTGCAGTGTGTTCGGGTTCAGGGCATGGGCACGGGATGGTGGCCGGCAGGACCAGCGCCTTGGTTGCTGATCGCAGCTTTGCACTCCCTGCAAGTTCTCCCCCTGCCCTGGTGGAGGCTTCCTTCATTCTCCTGGAGGCCTAGAGAAGGGGAAGAGCTGGCTCAGCACGGCAAGGGCTCCCACAGCGTTGGTTCAGGGCCTGCTGTCTCTTTCTAGCTGGCCCTGGTCCAGCCTTCCTATGGGGGTCCAGAAGGGCAAGGAGAGGGGCTCAGTGTGAGCCCAGCTGGCACCCAACTGTGCCTCTTCCATAGGCAGCATGAGTCACCATTTTTCTGGGGCCTAACATTCTGAGTTGACCTGCCACATTGGTCCACCAAGGGCACAACCCCAGCTCCCCTCAGCTCTAAGCCCCCTGACTTTGGGGGACATCAGGAGTACCTCCTAGGCTCCCTGCTCCCTCTTTCAATCCAGTCCCCCACCAAATCTGTTAAGACTGATGGTCCCCAGATGTGCAGAGGTTACCATGGAAACCAAGCAGCCATGTTATCCCAGCAACTGGGAGGCGGAGCTAACCAAAGCCAGGCAGTTTAGAGGAGGTAGGTTAGACCCTCTGCAAATGTTACAGGCTGAGGAAATGGAATCGGCTTGCTAGTTTGCCTGGGAAGCAGAGCAGGGGCTGGGATACAGGCTGCTGGTCCTGCTACCATGCTGTGTGACCCTGTCTAAATTGCTTGACTTCTCTGGGCCCCTGGTTTTCTCTCTCTACCGGAAGTGTGATGCCCTCTCCTCTGTCCCCTCAG
Seq C2 exon
GTCACACTTGCTCCCTCTGGCCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636:ENST00000373672:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.808 A=NA C2=0.909
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(15.9=58.3)
A:
NA
C2:
PF0139113=Collagen=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development