MmuINT0163299 @ mm10
Intron Retention
Gene
ENSMUSG00000026725 | Tnn
Description
tenascin N [Source:MGI Symbol;Acc:MGI:2665790]
Coordinates
chr1:160104827-160105530:-
Coord C1 exon
chr1:160105398-160105530
Coord A exon
chr1:160104979-160105397
Coord C2 exon
chr1:160104827-160104978
Length
419 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
GTCCTTCTGCTTGGTCTCAGTGG
3' ss Score
7.03
Exon sequences
Seq C1 exon
GAGGTGGAGCTCCCAAGAGGCCAGCAGAGATTTGAATTGCAAGACCTGGAACAGGGTGTCACCTATCCTGTTTCCTTGGTTGCCTTCAAAGGTAATCAGCGGAGCCGGACTGTGTCTACCACCCTTTCTACAG
Seq A exon
GTAACGTGGAATCTAGTCTTTTAAGTGACAATACACAGAGAGGCATTGGAGCGGCCAGGGAGGAGTGTGGAATTATAGAGAAGTAAAAATGGGGTTCTGGTTTGCAAACCAGTCCACCCCACAGTGATGTGACTAAAGAGGGAAGTGGGGAAGCTAGGAGAGTAGACCTAAGACACTGAGGGACATGAGCCTAACTTAAAGGTGCATTTGCAGAGTTTGATGGAAGCAGAGTGATGGCCAGCTGGCCTTCCTTCTAAAAACATGTCCCATGATCAATATGTGAGCTAAGAATTGGAAAAAGCAAGTAGTGTAGGAGGCGATGAAATAATCTCCAGACCAAGCGAATTGTCTCGTAATGGGGAAAGCTGCAATGTCTCTTCTTTCCCGTCTAACAACACCGTCCTTCTGCTTGGTCTCAG
Seq C2 exon
TGGATGCTCGCTTTCCACACCCCTCAGACTGCAGTCAAGTTCAGCAGAACACCAACGCTGCCAGTGGGCTCTACACCATCTACCTCAATGGTGATGCCAGCCGGCCCATGCAGGTGTACTGCGACATGGACACTGACGGAGGCGGCTGGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026725:ENSMUST00000039178:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.176
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(45.6=80.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(20.8=86.3)
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:
GGAGCTCCCAAGAGGCCA
R:
AATCCAGCCGCCTCCGTC
Band lengths:
280-699
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