HsaINT0038384 @ hg38
Intron Retention
Gene
ENSG00000108821 | COL1A1
Description
collagen type I alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2197]
Coordinates
chr17:50192994-50194041:-
Coord C1 exon
chr17:50193943-50194041
Coord A exon
chr17:50193048-50193942
Coord C2 exon
chr17:50192994-50193047
Length
895 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CTAACTCCCTTTCTCCACAGGGA
3' ss Score
11.76
Exon sequences
Seq C1 exon
GGTCCCGCCGGTCAAGATGGTCGCCCCGGACCCCCAGGCCCACCTGGTGCCCGTGGTCAGGCTGGTGTGATGGGATTCCCTGGACCTAAAGGTGCTGCT
Seq A exon
GTGAGTATTAAGTGAGGATCCATGAAGAGCCAGGGACAAACACACCTGAGACTTGAAGGAGTCCTGGGCTCTGGGCTCAGCTGTGCCGCTGACCTGCCGTGTGGCCACTCACTCTCACTTTCTGGACCTCAGCCTCCCTATCTGTAAAATGAAAGACTTCTCGGCGGGGCACGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGGCAGACCATGAGGTCAGGAGTTTGAGACCAGTCGGGCCAACATAGTGAAACCACGTCTCTACTAAAAATACAAAAGATTAGCTGGGTGTGGTGGTGTGCACCTGTAACCCCAGCTAGTCAGGAGGCTGAGGCAGGAGAATTGCATGAACCCGGGAGGTGGAGGTTGCAGTGAGCTGAGATCACGCCATTGCACTCCAGCCTGGGCAACAGTGCGAGATTCCATCTCAAAAAAAAAAAAAAAGAAGAAAGAAAGAAAGAAAAAATGAAACACTTCTCCAGGCTCCATGACCACTGCTCTGTCCTGGAAATAAGTGTTGTTGGTGGCCCTCCACCCCGACACGTGGGGATAGGACAGGCCTTTGATATGATAGGCACCCCCAGTCTTGGTGGATTCTTTGAGGTCCAAAAGGAGATAGCAGAGAAGATGAAAGCCCTTTGCAGTGCAGGCCACAGCGGGCATCTAACAGGGAAAAGGCAGAGGAGCCTGGAAGGGCATCTTGGGAGGAGTGGGCTCAGAAAGGGCCCAGCAAGAAGCACCTGCAGGGGCATTCCCCGGGGGCCAAACAGTCTTTTGAAAAGAAAGTCCCTTAAAAAGTCCCACTCAGAGTAAATGAGAGGCCCCAGGAGGCCCTGGCTTCTCACTTCAGCCCCCTCAACCCTAACTCCCTTTCTCCACAG
Seq C2 exon
GGAGAGCCCGGCAAGGCTGGAGAGCGAGGTGTTCCCGGACCCCCTGGCGCTGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000108821:ENST00000225964:25
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
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