MmuINT1022793 @ mm10
Intron Retention
Gene
ENSMUSG00000026390 | Marco
Description
macrophage receptor with collagenous structure [Source:MGI Symbol;Acc:MGI:1309998]
Coordinates
chr1:120493620-120494262:-
Coord C1 exon
chr1:120494044-120494262
Coord A exon
chr1:120493656-120494043
Coord C2 exon
chr1:120493620-120493655
Length
388 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CTTCTCTCCTTCCCTTACAGAGT
3' ss Score
11.95
Exon sequences
Seq C1 exon
TTCTCAATCTGCAGGAGCAGCTCCAGATGCTAGAGATGTGCTGTGGCAATGGATCACTAGCTATCGAGGACAAGCCCTTCTTCTCGCTGCAGTGGGCACCCAAAACACACCTGGTACCTAGAGCACAGGGGCTGCAAGCCTTGCAGGCCCAGCTCAGCTGGGTCCATACCAGCCAGGAGCAACTCCGTCAGCAGTTCAACAACCTCACTCAAAATCCAG
Seq A exon
GTACCACCACACCCAGTCTCTGTGGTGCTGAGGATGAAACCAGGGTTACCATGCATGCTGGATGAGAACCCTACCAACTTAGACATTCCCACCCTGCAGAACAGCCATTTTGACCAACACAGATTGGTCAAGGGCAAAGCTGATATAGACCAGCAATCTGAGTATTTCTCTATTTCCTCAACTTCCAGAGGGTCCCATTCCTGGTCCGTCTACGCTTACTTTTCTGAACAAATTCAGGTGTTATTGTTCAAACCTCCAAGGCTAGAAGACCCATGGGGTCCCAGGCTTCCAATGCAGAGCCCATGAGCTCTCGTTGGGGCACAGGAGCAAAATCAAGCTTCCCTCTGCACTCTGGCTCAGTCTGCAACCTTCTCTCCTTCCCTTACAG
Seq C2 exon
AGTTGTTCCAGATTAAAGGTGAACGAGGCTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026390:ENSMUST00000027639:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.203 A=NA C2=0.769
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(11.7=53.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
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:
CAGCTCCAGATGCTAGAGATGTG
R:
CTGGAGAGCCTCGTTCACCTT
Band lengths:
238-626
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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