HsaINT0037896 @ hg38
Intron Retention
Gene
ENSG00000060718 | COL11A1
Description
collagen type XI alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:2186]
Coordinates
chr1:102997080-102998363:-
Coord C1 exon
chr1:102998310-102998363
Coord A exon
chr1:102997125-102998309
Coord C2 exon
chr1:102997080-102997124
Length
1185 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TATGTTTTTGCTAAATATAGGGT
3' ss Score
5.9
Exon sequences
Seq C1 exon
GGACCACAAGGAAAACCAGGACTTGCTGGACTTCCTGGTGCTGATGGGCCTCCT
Seq A exon
GTAAGTAACAGCTACCTGGTCATTAAAATTTCTTTACATTATCTTTAAAAATAGATTTTACATGTGTTTTAGAAATGATTATATGAGGTTAGTAATAAAAATAAATTGAGCCAGTAATTAAACATTGATCTCTCTAAAATACCTTTCATCATATCACTTCCATATTGCAAAATCTTTAATGAGCTCACGGTGGCTTTTGTGGAAACTCATTTGGCACTCCAAGCCAGAACCTCCCCAGAATCTCATATTTTTTTTCATTTCCTCCTTAACCATTAGCTCCAGGTAAGCAGGTCCACTCACATATTCTTGCATGATCTAAATTTTCTATCACCTTACCTTTCCCAAGCTGTTTCCTCTCCTAGAAAGCCCTTCCATCTTCTCCTCCTTTTCAAAGTATCTGTTTCTATGAGTCCAGGTGAAGTTCCTCACCATTCATAAATTTTCTCAGACATCTTTCATGAAAATATCTCAGCCTTCACAGATTTCTTTCTTTTCTAGAAATATAGTAATATTTATTATTTCCCTTTAAATAGTAATAAACAATGAAATTATGTAATCTCTACAGTTATTATATTAAAACATTTGTTATTTACAGATTTTTTTCCTCTTTAAACTACATATGCAGATTTTGTAGTACTAGGATATAAGATTTCTCATCCTACCTTTCCTTGTTATTGGGTATAATTGTGATATGGCTATACATTTTTATTTACTGAATCTCAATAAGTTGATTATTAACACTGTTAGCATTTATGATCTCGCTGTATTTTCAGATGTCTCATCCACATGTCTTAGTGCCCCTTTGAAGGTGCATGTATGATCATTTGATTAATTTGCTAAATATAAGGCAGATTTAAATACCTTTATGTAAGGCTTTAATTGAGGCTGGGGTTGAATTGTTAATGAATGATATGTATTATTTTATGTGCTTTTTCTAAGCTCTCTCAAATGCATTATGTATTTGAAGAAACTTACATCCATCAAATATAAGCTTGTCATGTTTACTTCCAAATGCCATAGTTTCCAATTTATTTAAAGCCATACACACTGATGCAAAAGTGTTCAATGTTTTTGAAACTTAAAGAGTAAGATCTTAGTAGATTTAATAACAAAAGAAATACTTTCGTAGTATTATCAACTATGTTTATATTACATCTTATCAGTGTATGTTTTTGCTAAATATAG
Seq C2 exon
GGTCATCCTGGGAAAGAAGGCCAGTCTGGAGAAAAGGGGGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000060718:ENST00000370096:25
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:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=PU(12.9=61.1)
A:
NA
C2:
PF0139113=Collagen=FE(22.2=100),PF0139113=Collagen=FE(20.9=100),PF0139113=Collagen=PU(11.3=53.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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