MmuINT0065276 @ mm10
Intron Retention
Gene
ENSMUSG00000026193 | Fn1
Description
fibronectin 1 [Source:MGI Symbol;Acc:MGI:95566]
Coordinates
chr1:71585524-71586943:-
Coord C1 exon
chr1:71586830-71586943
Coord A exon
chr1:71586284-71586829
Coord C2 exon
chr1:71585524-71586283
Length
546 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
TTTGTCTTCTATTTTGACAGAAC
3' ss Score
8.44
Exon sequences
Seq C1 exon
GGCTGGCGCTGTGACAACTGCCGTAGACCTGGGGCTGCTGAACCCAGTCCCGATGGCACCACCGGCCACACCTACAACCAGTATACACAGAGATACAATCAGAGAACAAACACT
Seq A exon
GTAAGTGTACACATATCCCCACCCACCCCCACCACCGTGACTCTCCCTGCATGCAGCCAGGGGCAGGTGGATAGATGCTTTTCTTGAATGAACCAAATGAGTTTTATTTGGAGATAAGTCTTTTGCTCATGAGTCCAGTCCTCAGGACCCATCCATGTAAAAGAGCTAGGCGCTACAGCAAGTGCTTATAATCTCCTCACTGAGGAGGTAGAAATAGGGTGTGGGTGGTGTCCCTGGGGCTGTCTGGCCAGCCACTGTAGCCTTGTTAATGAACTTCAGGCTCATGAACAAAGCAGACAGCATTTGCTTGATTAAAGTTAACTCTTGGCTCCTTATACACACAAAGTCATGAATTAATTATAACTCGTTATAATTTACTAAATCCCTAAGCATTGTCTATTGCTCAGTACATTGCTAGTCTTTTGAAACTATTTATCCTTCCTATAAAACACCTGTGACACAAATCTCCACTCAACCCTCCCCGAAACACACACACTTTTGGTTTTCCGAGTATTTGCTACTAATGTTTGTCTTCTATTTTGACAG
Seq C2 exon
AACGTAAATTGCCCCATTGAGTGCTTCATGCCGCTAGATGTGCAAGCTGACAGAGACGATTCTCGAGAGTAATCTTTCCAGCCCCACCCTACAAGTGTCTCTCTACCAAGGTCAATCCACACCCCAGTGATGTTAGCAGACCCTCCATCTTTGAGTGGTCCTTTCACCCTTAAGCCTTTTGCTCTGGAGCCATGTTCTCAGCTTCAGCACAATTTACAGCTTCTCCAAGCATCGCCCCGTGGGATGTTTTGAGACTTCTCTCCTCAATGGTGACAGTTGGTCACCCTGTTCTGCTTCAGGGTTTCAGTACTGCTCAGTGTTGTTTAAGAGAATCAAAAGTTCTTATGGTTTGGTCTGGGATCAATAGGGAAACACAGGTAGCCAACTAGGAGGAAATGTACTGAATGCTAGTACCCAAGACCTTGAGCAGGAAAGTCACCCAGACACCTCTGCTTTCTTTTGCCATCTGACCTGCAGCACTGTCAGGACATGGCCTGTGGCTGTGTGTTCAAACACCCCTCCCACAGGACTCACTTTGTCCCAACAATTCAGATTGCCTAGAAATACCTTTCTCTTACCTGTTTGTTATTTATCAATTTTTCCCAGTATTTTTATACGGAAAAAATTGTATTGAAGACACTTTGTATGCAGTTGATAAGAGGAATTCAGTATAATTATGGTTGGTGATTATTTTTATAAGCACATGCCAACGCTTTACTACTGTGGAAAGACAAGTGTTTTAATAAAAAGATTTACATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026193:ENSMUST00000055226:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.217
Domain overlap (PFAM):
C1:
PF0003913=fn1=PD(8.3=7.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCCACACCTACAACCAGTA
R:
CTGAAGCAGAACAGGGTGACC
Band lengths:
351-897
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