HsaINT0038185 @ hg38
Intron Retention
Gene
ENSG00000084636 | COL16A1
Description
collagen type XVI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr1:31675258-31679685:-
Coord C1 exon
chr1:31679632-31679685
Coord A exon
chr1:31675312-31679631
Coord C2 exon
chr1:31675258-31675311
Length
4320 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GTGTCTCTTCTTGGCTACAGGGA
3' ss Score
7.88
Exon sequences
Seq C1 exon
GGTCCACCAGGTATTCCCGGACCACCAGGCCCCCCTGGAGTACCTGGGCTGCAG
Seq A exon
GTAAAGGGGGAGAAGAGAATGAGGAGCTTGGGTGGCAGAGCTCATGGGTCAGGATGGCTGCTCCCGGCTGGACCCCAAGGATGCTGCTCCCCCACCCCAAAAACACAGACATGCCATTTCTCACTCCTCTGTTTACCTGCCTCCCAGGGTGGCAAGGAGGGCCCACTGAGCCTCTAGGCCAGGCTCTGCACTCCCAGCACTGTTTCAAGCAATGCACTGTTGCGTCAGCTGTCAGGCACCCACAATCTGGGTCAGATAAAAATCCCTTACCCTGGTACAGAGCCCGGCCCACTGTTTTGGAGTAGCATTCAACACTCATTCATGCAACATGTGTTTTTGCACATTTGCTATTTTCTGGCACTGCTTTAACTGCTGTGAATACAGTAGTGGCTAAAAATAAAAGTCCCTGCCCTCTTGGAGCTTATATTCTAGTAAGAGAGACAGACAATAAGCAAGATAAATAAATAAAATATAGTGTGTTAGAAAGTGATACATACTAAGGAGAATGGTAAAGCAGGGAGTGAGTATAGAAAATGGGATGAGGGCAGGAGAAGTATTTGCAAAATGTACTGAAAAGAAGGTGATGTTTGAATCAAAACTTAAAAGAGATGAGAAGCTGTGAGGGATAGCCTTTGTGGCAGAGAAAACAGCCGGTGCAAAGGCCCAGAGGTGGGATGTGTTTGGGGAATTGCAAGGAAGCCAGAGATAGTGAGGGAAGAGCATTAGGAGCCAAGATCTGTGTGACACTGTGAATAAAGGGTACATTCCAGAGGCAGGCAGCCTGAACTTGAATCCCGGCTCTGCCATGTGCTAGCTGTGTGACGGTAGGCAAGTTCCTTAACCTCTCTGTGTCTCACTGCCCTCTTCTGCTAAGTGCGCCTAACTCATAGGGCTTTTGTGAGTATTAAACAAGTTAATGCATGTGAAGGGTATAGAATTGTACCCATGACTATTATATATTATTTATGTGACAAATGCTTAGAAGGCATTAGCTATCATTATTATGATGATGAGTACTATTATTATTTTACGTCCATTCTTTTATTCATTTGAGCCTTACATAAAAGCCCCAAAAGGAAGGCAGTATTATTATTCCTAAGTCACAGCTGGACAAGCTGAGGCTCTGAGCGATGGAGTATCTTGTCTAAGGCCGCCCGACTAGGAATTGACAATGCTAGACTGGGGCTTCCCCATGCAAAGCACTTTTTACCTTCTTCTGATGCCTTTCAGGACAGTTCCCAGTGGTTTGCCTAGCAAGCCACGTTTTCCAGAGGTTCTAGGTGGCATAGACACCACTGTCCGTGTGTCTGGCTCCCAGCTCCTAAGAGAGTGATTCTCACCTGAAGAAGCAGGGCAGCATCACATGGAAGCTTTTTACAAGCTACTCCTCCTTGCCCCAATGATTTGATAGATTTTGTATCTTCCCTCCCCACCCCCGCCACCCTGGCACACCTCCCCTGCCACCGTGGGCTGGGAGTCTGCTCTAGTGAGCCACTGTTGCCGATGGGAGTCTCTGCCAGGATCCCAATTCTCTCTACCCTATTGGAAGTGCTGAACTAGAGCCCACGCCACATATTTGCAGCCACACATTTGCCGAGTGTCTGGGGCTTTTGGGGCTTCCTGCCACACTGCCAGGAAACAGGAATCTGTCTGCAGAGGGCTTGCAGTTTGCTTGGGGAAGTGTAAGAGTCATTTCAAAGTGACCCATTAATAAGCGAGAGCTGATGTAGTGTAAACCCTGCCAAGACATGCTGGGGAATGAGGCAGAAAAGAGTGACTGCTGAGTCTGGTCCCAGGCACCAGAGTCCTTACCTAGTGCCAGTGCTTGAGACCAAGCCGAGGCTGCTGCTCACAGGTACCTGCCCCATGCCAGGTGGGATGCAGGAGGGCCAAGCAGCTCCTTTATTCAGGTATAGAAACAGGCTCAGGGATGTACAGCACTTACTCATCCAAGGCTGTATTGTCCCAGTGCTTAGTTATCTCATTTCATCTCAGTCCATTCCACAGAGGAGGAAGCTGAGGCACTGAGGTTAAGAAAGATGCCTGAGGCAACTAGTAGGTCATTGAGCCCAGCTTTCAATTCTGGCTGCACTTCGCTTCCGCAGTAGGACAACAGGTAGAACATTTAGTTCTGAGAGGTCAGGAAAACAATTACAAAGTATCAGGCTTGAACTATCACACTGGCCCTGGAGAGGGGAGCAAGGGATGAATAATGATTTAAGGCATAATAATTAACATGTTCGGGCCAGGCGTGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGTCGGCAGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAGCATGGCGAAACCCCGTCTCTACTAAAAATACAAAAAGAATTAACCGGGTTTTGTGGTGCATGCCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAAGCGGAGGTTTCGATGAGCTGAGATTGCACCACTGCACTCCAGCCTGGGCGACAGAGTGATACATCTCAAAAATAATAATAATAATAATAAATAAAAAATAATAATTGACATGTTCAAGGCATTTTCCCTGTGCCAGGCACTGCTCTAAGCCCTGATGGTGCACAGAGGTGCCAGGGGGCCTGGATGGTGGCTGGCTCCGGGTCTGACCCAGGCCTGGTAGAGCCTGCCTGGAAATTGCTCGGGGGCTGGTGATATGTTCCATTGCTGGGAGCTGGGACTTGAAGGAAGGCCAGATCTCAGAGTGCGCCAAGGAAATCCTGTGCAGGGAGGAGCAGGCTGAGCAGCGGTGCATTCACTCAACACGTACTTACTGCACATCTCCTCCATGTTGGGTGCTGGGGATTCAAAATGGAACATACTCCCTGCCTCCATGGAGTATTTAATATGCAAATGTGCCTCACGAATCTGCAAGGGGAACATTGTCCGGGTGGCATGGATTTAATGTAAACATCGTTGCAGCCATTGTCTCCTTGAAGCCTCACCATAAACTATCCCTGTTTTATAGATAAGGCAACTGAGGCATAGAATTTTTTTCCCCCAAATAAATTGCCAAAAGTTATACAGGTAGTCAGAATTTTGTATCTAGATGAATCTGACTGGCAAGTACCCACCCTTGCTGTGTACATGAATGTTCTGGGGATGTCTGTTGAGGAATGATGCTAGAATTGTGGTTAAGAGAGGGGTTAGAAGCCAGTGATCCTTGCTCTGGACCTCAGCTCTGTGCCTTGCTCAACTTGTGACCTTTGGCAAGTTACTTACTCCTCTGGGTTCTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCCCTCTGTTGCCTAGACTAAAGTGTAGTGGCGTAATCTTGGCTCACTGCAACCTCCATCTCCCAGGTTCAAGTGATTCTCCTGTCTCAGCCTCCCGTGTATCTGGGACCACAGGCACACACCACCATGCCCTGCTAACTTTTATATTTTTAGAAGAGACGGGGTTTCGCCATGTTGGCCAGGCTGGTCTCGAATTCCCGGCCTCAGGTGATCCGCCCACCTCGGCCTCCCAAAGTGCTACGATTGCAGGTGTGAGTGACCGTGCCCAGCCTCCTCTGGGTTCTTTGTGCTATTTTTAAGATGGAGATAACAGCACCTAGTTCAACAAGATAGCTGTGATGATTAAACGAGAAAATAGGCTGGGTGTGGTGGTTCACGCCTATAATTTCAACATTTTGAGAGGCTGAGCGGGGAGGATCACTTAAGCCCAGAAGTTTGAGACCAGCCTACCAGCGAGACCTGGTCTCTATAATAAACACAAAAGAATTAGCCAGGCATGGTGGTGAGCGCCTCTAGTCCCAGCTACTCAGGAGGCTGAGGTGGGAGAATCGCTTGAGCTGAGTTTGAGGCTACAGTGAGCTATAATTATGCCATTGCACTCCAGCCTGGGTGACAGAGTGAGACCCCGTCTCTACAAAGAAAAAAAGAAAAAAGAAAAGGAAAGGAAAAAGAAAGAGAGAAAATATAGAAAAACGACTTAGCACAGAAATAAACAGTAGTTCCATGGAAGACCCTCTGCTCAATTTCTGACCTTCCCTCTGATGTGGGGGGAAAACACTTGCTGTTGGACGGTTTGGGGGGTCGCTCTTCTGGGCCTCCCTGGCTTTCCCTATAAGGGTCGAGAGGCTTTTGAGCTAAGAATAGATGTCAGCCTTGTGCCAGCCAGGGCTCTCAGCTCTGCAGGACAAGGGGAAGAGGAGGCGGGGATGATGAGAAGGAAACAGGCTGACCAGCAGGCTAGAGAGATGGAGCCCACTCACTCGTGTCTCTTCTTGGCTACAG
Seq C2 exon
GGAGTGCCTGGAAACAACGGTTTGCCAGGACAGCCTGGGCTCACTGCAGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000084636:ENST00000373672:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.914 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(26.2=100)
A:
NA
C2:
PF0139113=Collagen=FE(26.2=100)
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