HsaINT1008045 @ hg38
Intron Retention
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:103025521-103026332:-
Coord C1 exon
chr1:103026216-103026332
Coord A exon
chr1:103025614-103026215
Coord C2 exon
chr1:103025521-103025613
Length
602 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TCTTCTGAATTTACCATTAGGCA
3' ss Score
6.09
Exon sequences
Seq C1 exon
TATGCACCAGAGGATATAATCGAATATGACTATGAGTATGGGGAAGCAGAGTATAAAGAGGCTGAAAGTGTAACAGAGGGACCCACTGTAACTGAGGAGACAATAGCACAGACGGAG
Seq A exon
GTAAAAACAAAGCAGTGCCTGTGTATGTGGTGTCCTGCTGTTCGTCATCCTGTGGTTCCTTATGTTGACTGTTCCTCAAACTTACCATAAACCTTTCATTCATCTTATTTCTCTGAACCAATAACTGTGATTTTTATTTGACAGTAGCCGTTTTGAAGAATGATGTCCATTTCACTTTTGCTTAGCCTTCCTTTCATCTGTGCTCTATATTTCCCTCCTCGTTTATTTATGTTTTCCATTCCATCTTTCACCACATTTTACAGAAAAAGAAATCCAATTTCAAAAAGAAGATGAGGACAGTGGCTACTAAATCAAAGGAAAAATCCAAAAAGTTTACACCCCCCAAATCTGAAAAATTTTCATCCAAGAAGAAGAAAAGTTATCAAGCATCAGCAAAAGCCAAACTAGGGGTAAAGGTAGCGAAGAAAAAGCAATCAAGATCTATCCTAGATAAGCTGGAAGATCTCTGATCATGAATCATAGTCTTAACCCAACTAGATAAATACTCACTTGGCTAATACTATAACCCAATTAAATCATGATTTCCATACATTTGGGATCACCTTACATGTTTACTAATTCTCTTCTGAATTTACCATTAG
Seq C2 exon
GCAAACATCGTTGATGATTTTCAAGAATACAACTATGGAACAATGGAAAGTTACCAGACAGAAGCTCCTAGGCATGTTTCTGGGACAAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718:ENST00000370096:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.924 A=NA C2=0.763
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCACCAGAGGATATAATCGAAT
R:
TCATTTGTCCCAGAAACATGCCT
Band lengths:
207-809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains