HsaINT0038347 @ hg19
Intron Retention
Gene
ENSG00000082293 | COL19A1
Description
collagen, type XIX, alpha 1 [Source:HGNC Symbol;Acc:2196]
Coordinates
chr6:70875833-70877967:+
Coord C1 exon
chr6:70875833-70875877
Coord A exon
chr6:70875878-70877916
Coord C2 exon
chr6:70877917-70877967
Length
2039 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
TATCTCACCTCTTTCCTAAGGGT
3' ss Score
7.58
Exon sequences
Seq C1 exon
GGCAGCGACGGACCCCCTGGGAAACCCGGACCACCTGGACCACCT
Seq A exon
GTGAGTTGTTCTAGGCTTAAAATTTAAAATTCATGTGTTTACTTAAGACTTTTATAACTCAGAGGTAAGACTACATTTAGATGTTTTCAAAGATAAAATTCTTCTGAATTTCGTGTATAAATATAAATGATAGCCAATGTAGCTTTAAAGAGACCTGATTTGTTCTCCTTTTGGTTCAGCCTCAATGTGCAATGCTCAGATTGGCATACTGCGGGTCTCCCCATCTTGGATTTAGGAATCTGGGTTTGTGCTCCGACTCTCCACTTCCTGGCTCGGGGCCCCTGGGAAAGTCATTTAACCTTAATGTGCTTCATTCACAGAAAGGAGAAGGGCCAGAAAAATAGATCCTTTCCGCTGATGCGAGTTGGTAGAAAATCGGATATTATGCTATATGTGTTCATTCCCATTCATGATGTCTGAGATGCAAGGAAACTCTATTTATGTAGCTCTTAGTGAACAAAAAGTACAAGAGGCATCGATGTTTTCATTATTGTGATTGAGACAGATGCACGCTCCGTCAGGGAAACGGTGGAGAGGAGAGGAGCCTCTCTCCGTGGCAAGTCTGCCCTCATGTGGGGCCACGCTCGAATCGCAGCCGAGCCGAGCTGAGATATCACGCAAAACACCCTTTTCTACCCCACCTCACAGGAATACTTTAAGAAACCAAACTCACCATAGAAAGGGCAGAATTGACCGTGACTTTCCGAAGACAATGAGGATTATTATCAGTCTGCGTGCAGTTGCATGCTTTGTACACGTAAATGAAGAGATTAGCACTCTATTTCCTAAACTTGTTTCCTAAATCTGTTCATCTGTGTTACTGACCTTTTCCCTTGACAAGAAAGCAGGACGGAAAGTATTAGGGTTCAAATCCTAAAATTCACTCCTTCCCCCGTGGGCAGAACAGCAAATATAACATGAGTTCATGAAAGGGACCTATAATTTTATAATGCACTTAAGATGTCTTTGTCTTCCCTCTGAATTCTCCAAAACCATCCATCCTTCAAAACACAGTTTAAATGTTTTCTTCCCTGGGAAACCTCCTTTGGAAATCTCAGATGAAAATATCCTTTGTCTCTCCAGGACGTAGCACACTAAAATATGGCAGACATTCAGTCGCTGTCAGATAAATGAGTTAAATAATAGAGTAATAAATGGATGGAGCGTTTGTCTTCCATCACTAGTGTTTGGAAGATGCATGCAAATTGTCTTCACAGAACACTACTGGCCACCATCATACAGAAACAATGAAACAGTGACTTCTTCAACTCTGCAACTGATATGTGAAAACTGCAGAAAGGAAAAGGCAGATTTGACTATTGATTCTATACAAATGTTTAAAAAGAAAGACAAAAGATTCTAACTAAAATTTTTATATGGAAATTTTTCCTAAATGCTAAAATGTATGATTTTTTTAAACTATAGAATAAGTTCTCCTTTAAGTGTTGGTTACTCTAGGACATGTCAATTTTTTTCAAGATGTTCTTATTCTCTTTTATCCTAAAGAATTTATTTTTGTAGAAACATCCACACAGGGTTGTGGATAATGTCATCTCCCCATTTACCTTAATTTTCTATTTGGTATGAAAAGACTGTGGAAAAAAATTACTTTTCAGTAGCCAAATTGTTCCCTATTCACATCTTCATCAGCACTATGGCATTATAGCCTGCAGGTTAGCAGGCTGTAAACAGTTAGTATAAATTGACAATTCAGAAACTGAATTTTAATGAGCAAATATTTTCCTCCAAATGCATTAGTGTCTCATCTGTCAAACCTGAACATTAATTAAACCCCAACTGAAAGTATCCGTGTGCTTCAGGTGTAGCTCACACTCCCTTTTCATTTCCCTGCATTTGCTTTGGAAAAGCTAAAAATTAAAATGTATTATTTTACTTAGAGTATTAAATTCCCTTTGTAAAATAGAATAGAAAAAAGTAAAAAATAGAATAGGAATAGTATCATTTGGTAAAATGATAAAATGTAGAGATGCAAAGTATTAACTTCCAAGAATAATTCTGTATCTCACCTCTTTCCTAAG
Seq C2 exon
GGTATTCCATTTAATGAACGAAACGGCATGAGCAGTTTATATAAAATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000082293-COL19A1:NM_001858:37
Average complexity
IR-C
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(21.2=100)
A:
NA
C2:
PF0139113=Collagen=PD(7.6=29.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- 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)