MmuINT0038861 @ mm10
Intron Retention
Gene
ENSMUSG00000027966 | Col11a1
Description
collagen, type XI, alpha 1 [Source:MGI Symbol;Acc:MGI:88446]
Coordinates
chr3:114186528-114187751:+
Coord C1 exon
chr3:114186528-114186581
Coord A exon
chr3:114186582-114187697
Coord C2 exon
chr3:114187698-114187751
Length
1116 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGC
5' ss Score
5.34
3' ss Seq
GTGTATTTTTACATTTCTAGGGT
3' ss Score
9.64
Exon sequences
Seq C1 exon
GGGCAAGATGGTGTTGGAGGTGACAAGGGTGAAGATGGAGATCCAGGACAACCA
Seq A exon
GTAAGCAAGACCTTACCTTTTTCAAATCTTGGGTAGCCCATACATTTTTTTAAAAGGTGATTCAAAGAGATCAAGTTTAGTTAAATTTGTTTGGATGAATCATCTCATTTTATATGTTGTGTATGCATTCCCAAAATATGCCATTATAGATTTATGAACTACTATGTCAAATTCTTTTACTTAGGGATTATTTTATAAAACTTTTATCTACTATTCTGCTATCCAATATATCTAGGCTGCAGCTTCGCCTCAACTCTTCCTAGTTGCCCCCTCCCCATTGGCCCCTCTTCTCCCAGAAAAGAACAGGCCTTCCAAGAACAACAGCCAAATATAACACAACAAGACACAGTAAGACCATATACAAACCCTCACATCAAGGCTGGATGAGGCAGACCAGTGAAAGGACACGCAAGGGTCCCAAAAGCAGGCAAAAGAGACAAAGACATAACCACTCTCACTTACTTATAAAAGTACTTTTTAAAATATAAACAAGCAGTATAAAGGAAAGACAGCCTAATAGCTTGCTGAGGCTATTTTAGCCAAGACACTAAATGAAAGTATCATATAGAGATTTTAATTTTTTGGAATGACACAGAGTGTTTAGCCAGGTGGGTTACTTAGGAAGGCAAAGAAAATATGAAGGACATAAACTTTAATAGGTTTTAATACAGCTTCATTTCTTTCAAGGATCTCTTTCTTAGGTGTCAGGGGTCTAAGGTAGACTTATGTACATATTCCTCATAATTCCTCTTCCCAGTAGCATTAAAAATGCTGAGATTGCATGAGAAATTTAGAGGTAATAGGCAGATATACTCACTGCTTGCAATATAAAACCTGTACCTGTGTCTGTTAGGTGTTTGCTAAATACGTATTACCACTTTTGAAAGGAAATTTAAGCCACTTTCTTGTATCCATGAAGAAGTTTGCTGAATAAACATACCAGCTCACTCTATGAATATCTAGAGGCAATTCATGTATCTGAGTGGTAGACAAATATTTTAGCAATGATTGATGTGTGTACAGGAGACAAGAGTCAGTTTCAGTTCGTATAGGGAGGAATTATGTTGGTTATGAAAAATACCTAACTTACTAAACAGTGTATTTTTACATTTCTAG
Seq C2 exon
GGTCCCCCTGGTCCATCTGGTGAAGCTGGCCCTCCAGGTCCTCCTGGGAAGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027966:ENSMUST00000092155:53
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
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
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types