HsaINT0038568 @ hg38
Intron Retention
Gene
ENSG00000169436 | COL22A1
Description
collagen type XXII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:22989]
Coordinates
chr8:138662030-138663740:-
Coord C1 exon
chr8:138663705-138663740
Coord A exon
chr8:138662084-138663704
Coord C2 exon
chr8:138662030-138662083
Length
1621 bp
Sequences
Splice sites
5' ss Seq
CCGGTACAG
5' ss Score
5.65
3' ss Seq
CTTCTTTTCTTTTTCTTCAGGGA
3' ss Score
11.71
Exon sequences
Seq C1 exon
GGCCCTTCCGGACCACCAGGAGACAAAGGATCCCCG
Seq A exon
GTACAGTATGCTTTAAATAAAGGGATGAGTTTCTATGGGAGGAATCCTGCTCGAATCAAAGCAGTTTTAAATGGGAAGCACCAAAAACTGAAGTAGATTCTGAAATTTCCTCCTATTATTGAACAGTGCAGACTGTCCAACCTATGAACTCTGACCTGTGGAATACAGTGTGATAGATGTACATATGAGCAGAGAAGGGATGCCACACCCATATTATAGTCAGGCAAACAGACTGGCTTCAGTTTTGGGCATCTTTTCAACACAGAAGGGTGGCCATGGTTTAATGAATTCAGCCAAATTGCCTGAAGAACTAATTTTGAATCCTGGTTTCACCAATCCCAACCACACAGCAGTGAGCCAACATGGGGATTGCTCTTAATCTGTAACATAGGCAGAGCAAGACCCGGGAGCCACTGTGGAGACCTGGTGGACTGACTTCATGCTGAAGCAACAGGAGGGCTCTCAGTCAGCCTTCATTCTTAGGAGCAGCAACCATCCATGACATGCCTGTGCGTGCATTTACTGGGAAAATGCGATTTCCTATAAATTCACCCCAGGGGAAATAGCTGCATTGTAGCAAGTGGGATGATATTGTATCTTATGCCATGTGAACGTATTTTAAATAACCTTTATTTATATGATTTCTGAATTCAGGACAGGGATTGCTTTGTGTGTGTGTGTGTGTGTGAGTGACAGAGTCCTGCTCTGTCAACCAGGCTGGAGTACAGTGGCACGACCTTGGCTCACTGCAATCTCCGCCTCCTGGGTTCAAGCAATCCTCCTGCCTCGCCCTCCCCGGTAGCTGGAATTACAGGTGGGAGCCACCATGCCCAGCACAGGGCTACAGGGCTCCTTATACCCATTTTTATAGATGAAGAAATTGAGGCACTACGTAGTGAACTGATAGACGTGAGATTTCAGAGCAAGTTATGGCAAAGTAGAGGCAAGACAGGTGGGACTCTAGATGGAGGGGTCATGTGAGAGGAGGTCTGTGAAGGCCCAGGAGATGCAGGGTCAGCTCCTGAGCAGCCCGGTAGCACAGTTCCAGCAACTGCCAGGAATTCCCACTTTTAGACCAACTTAAGGAAAAATCTTACGGGAAATGAGATCCATAATGAAAGATATCTGTGCCGTTTCCTGATGTTGTCCAGAAAATTGCAGCTAGAAATTATTTTCTTACAAAGAGTTGTAATCGCCAGGCATATGCTGAGTGTTGTGCTGGGTCTTGCACAAGGAAACTTCTTTAACCACCTAGTTAGAGCTCTCGGGGCTGGTTATCCATAGGACATGAAAGGAGTGAGCCAGGGTTTGAGCTCAGGCCCATCTCACCACAGGAGCTGTCTCTTTCACTCAAGCAAGGGAACTATACAAATGGGGTCCAAGTTGTCAGGCTCAAAATGAAGATTTTCCAGAGCATTCTCTCTGTGTGTCGAGCACATACCTCCATAGGGTACAGTCAGTTGAGTAAGCTCTGAGCAGGGTGCTTTGGCACACATGTTGCATCAGATTCCTCATAGCAACAGACCATGTGTTGAAGGAGAGCCAACTATTGCCAAGGAGGGTGTGTCCTTATTTGCTTAAATATTGTAGGGTGTCAGTGTCTTCTTTTCTTTTTCTTCAG
Seq C2 exon
GGATCACGAGGCTTACCTGGATTCCCTGGCCCCCAGGGCCCAGCCGGCCGGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169436:ENST00000303045:42
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:
PF0139113=Collagen=FE(19.0=100)
A:
NA
C2:
PF0139113=Collagen=FE(29.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
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
- Autistic and control brains
- Pre-implantation embryo development