HsaINT0039603 @ hg19
Intron Retention
Gene
ENSG00000206384 | COL6A6
Description
collagen, type VI, alpha 6 [Source:HGNC Symbol;Acc:27023]
Coordinates
chr3:130360496-130361711:+
Coord C1 exon
chr3:130360496-130360558
Coord A exon
chr3:130360559-130361675
Coord C2 exon
chr3:130361676-130361711
Length
1117 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TGTTTTGTTTGTTTTCCTAGGGT
3' ss Score
10.08
Exon sequences
Seq C1 exon
ATATCTGCTGGGCTTCCAGGAGAGATGGGATCCCCTGGGGAACCAGGACCTCCTGGACGTAAG
Seq A exon
GTAAGTAGAAAAACTATAAACCACAGCAGGTCCTTTTCCATTAAAAAAAAAAAAGTCAGTGCATGAAATCTTCATTGTCCAAATGTGCATGCCTTCTGTCTCTGCTTCTTGGCCACTTTTTTCCCACCTTTATGGGGGAGAAAATACTGATTAAATATTTAGAGGTGAAAAAATACTGATTAAATACATCTCTTGAGAGAGAGGGGAAATTGAAGGAGGAAACCAAAAGTACTTAAACTAAAATGGTATTTCTCAATTATCATATTCTGTATCTGTTCAATCTTTCTATATGTAATAAATGATCATTGGATGAATGGAAGTGAAAGGAAATAAATAGTGACTGTGATCAATGTTGCATTCACATGGAACTTATTTGCTTCAGGAGGTCAGGGGGGGCTCTGTTGCATTTTTTTCTTGGGTGTCTCTCTTTGAAAGAAGCCAGACTCCTCTTCTTCTGAAGATGGGATTGAACACATAAGATTAAAACCAGTTCCATTTGTTCTTCTATCCCAAACTCTGACAGATTATATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATTTTTTGTTTTGGGAAGGTAGTTGAGATAACCTTTCCAGATGTTCAATTGAGTCCGATCATTTTGTCAGCTAACAAATGATGGGAACAGATTAAGGTTCAGCTCTGGCTGCTGTTCAGTGGCTCAGTCAAAGAATGGGGGTTGAAGACCTTGAAACTTCTGCTATGAAAGAGGGCAACTGCACATGTGTGGCTCACTTTAGCTAGTCCTGAGGCGTAGGCGTGCTCCAGAGCTCTGCGGCAAGTGTCAGGTTGTCAGCTCCATCCTGGTAATTCTGGACAATGCTTGTTAGCCAGAGATGGACCCGGAGGAAAGCGGCCTCTCAAGGCTTGTGTGCACCAAGCTTGCTGCTTAAAGTTTGTTCTTTCCAGAATGTTACTGTTAATTAGGTAATGAGTACCTACCTGCATTCTTTTTTGCCTCTTACAATTTAATGAGAATAAAACTTTTAAAAGTTATCACTTTCTGAGGGCAATGTTGGTGCACACTGGCTACTGATGTGTATGTCTAGAGGCATTAAAACAATGTTTTGTTTGTTTTCCTAG
Seq C2 exon
GGTGTGAAAGGAGCCAAAGGCTTGGCTTCATTTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000206384-COL6A6:NM_001102608:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)