HsaINT0039488 @ hg38
Intron Retention
Gene
ENSG00000163359 | COL6A3
Description
collagen type VI alpha 3 chain [Source:HGNC Symbol;Acc:HGNC:2213]
Coordinates
chr2:237351130-237352584:-
Coord C1 exon
chr2:237352522-237352584
Coord A exon
chr2:237351193-237352521
Coord C2 exon
chr2:237351130-237351192
Length
1329 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
TTCCTCCCCTCCTGCTCCAGGGA
3' ss Score
10.21
Exon sequences
Seq C1 exon
GGCCCAGCTGGTCCTGCTGGTCCTCCAGGGCTGATAGGAGAACAAGGCATTTCTGGACCTCGG
Seq A exon
GTAAGCCTGTCCTAATACCAGCCCCCTCTCTAGCTGAACAGAGGGCACATTGCCAAGCAGGCTGAGAGAGTTTCTCGGATGATGCTATTGTAGACAGACCTCCCTTTAGCTCTCCTCTTTGGCAACAAAAACCCCAGATTTAACCTCAGGCCTTGCAGTGACTGGCTACTTCACCCCAAGAAAGTAAGAGTTTCCTTTTTTGGTGCTCCATGGGCCTCTAAGTCTCAATTCTGCTCCTTCCAAGTGTCCCTGGGTGGAAATCAGGGGATATGCCTCAGGATGGAATCCTGGAAAATCTAAATCTACCAAAATGCTTAGATTCTGCAAGGTGTTTCCCCTTTGGTCCCTGGAGATAGCCCCTTGTGCTTATGTATTTTGTATAGTGAGTGCCTCAAGTTCACCCATGAGTTCAGCACAGAAGATGGCCCTTAAACTTGCTGTGACTGCAGATGTTATCTTGCAAAGCAGCTATCAGCAATGATGAGCAGAGACACACTGTCATTGCTGGGCTAGGATCAGGTGTCACGGAATTACGTATTCGGGTTTCCCTCATGGCTGAGATGATATTGAGGGAGGCATCCTATCATTTATTACCAAAAAATGACTAATAAACTGGTAACGAGCTCAATATGTTGCTACATAAATGTACAAAAATATTTTATGGTGGAAGCAGGCAAGAACTTGCTTAGAAAGTCCTTCTCTAGCTTGAAAGCTGATAAATACATATCTTTAGACGTTTTTAAAAAACATTTACTTAACTTGTAATTAATCAACAATTTAAGATGGTATAGATGCAAAGCTATTCAAATAGTTATCCAGTAGCTCCAGAAACATTTATTAATTTGCACTTTTTCACCATCTCTTTTATGTTATTTGTGGGTTGCGTAGACTGTACCACATTTTAAGAGTTAATTTCATCCATCAGTTTATTCATTCACCTAACAGGCTTTAACATGCCCATATGTACCAGGTGCTCACTGTGAGGGTGTGAAAAGGGAGGCAGAATAAAGTCACATAAAATCTGGGAGCTTGCCGTCCTGTCAGGAACCTAGGATATGTACATTAATAACTGCAACATGCATTAATTTGTGAAAACTGGCACTGAGAGGTAATACTCATGTTTTAAATTTGTGCATGCCATTTCTGTGCATGTTTATATTTGAGTCCGTAGCCCCGTGCTCAGAGCTGAGTGCTTGGGATTTGCAGGTGGGACAGGTTCCATGCCCCTGGCGGGCTCTGACTTCCATGCAGGGGAGAGTCAGGTTTCAGAGACCAATTTGCCTGGACGGTTGGCCACTTCACTGACACATTCCTCCCCTCCTGCTCCAG
Seq C2 exon
GGAAGCGGAGGTGCCGCTGGTGCTCCTGGAGAACGAGGCAGAACCGGTCCACTGGGAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163359:ENST00000295550:26
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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