MmuINT0163297 @ mm10
Intron Retention
Gene
ENSMUSG00000026725 | Tnn
Description
tenascin N [Source:MGI Symbol;Acc:MGI:2665790]
Coordinates
chr1:160107011-160110509:-
Coord C1 exon
chr1:160110246-160110509
Coord A exon
chr1:160107142-160110245
Coord C2 exon
chr1:160107011-160107141
Length
3104 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTA
5' ss Score
7.64
3' ss Seq
ACGTGGCTTCTCATTTACAGAAA
3' ss Score
8.88
Exon sequences
Seq C1 exon
AAATTGACAGCCCCAAGAACTTGGTGACCAACCGAGTGACAGAAAATACAGCCACCATCTCCTGGGACCCAGTGCGAGCCAACATTGACAGGTACATGGTTCGCTACACCTCTGCGGATGGAGAGACTAAGGAGATTCCAGTGTCAAAGGATCAGAGTAGCACCATCCTGACAGGCCTGAAACCAGGCATGGAATATACCATTCATGTGTGGGCCCAGAAGGGGGCCCGGGAGAGCAAGAAGGCTGATACCAAGGCCCTAACAG
Seq A exon
GTACTATGACACTTCACTCTTTCCAAGAGTGAGTCTTCCTCTATAAAAAGGGTGAGGAGGGGAGGAGGAGGGATGGTTGCTTTATCTGAAGATGTTTTCCAAAGTGGTTCTCCATTAACCTTGCTTGTGTGTGTTGTATGTGTTTACATGTTCATGTGCATGTATGCATATGTTCATGGGCATAGAGGTCAGAGGTTGACATGAGGTGTCTTTCTCAGTTGCTATCCATATTATTTTTTTTTGAGATGGTCTCTCTTTGATTTGGCTAGGCTGTTTGGTCAGTAAAGCTCAATGGATCTTGTCTGTCTCTGCCTCCTCTGCCCTGGTATTACAGATATATGTTACTGCCCATGGCTTTTTATGTAGGGAGTAAGGATCTGAACTTAGATTCTCACGCATGCATGTGAAGCACTTGACCCACTGAGACTTCTCTTCAGGCTCATAGTTCTCTTTCTGAGGTAGTGCTTTGACAGGTTAGGTAGGACTGAGGGCACATAGTATATGGTTGTATAAGTTATTCTTCCCCAGCCTATTGGCTGAGGCCAGATGCCAGGATCTCTGTACCTGATTTGTGTTAGAAACTGGTTGGGTCTCAGCTCCTGCTGGGAGAAGAAAGAAACAGGAACTGACTGGGCCTCCATGGGACCCAAAGTCTGTGGTCCCTTCAGGCATTTTGAACAAGGTCTATTTATCTTCTCTATGACCAGTAGAGGTGCCCTAAATTTCTTGATGGTTTTTATTAGTTAAAATTAAGCTCTCCACACACATTAAAATCTACTAAGAATAAAAAAATCACATTGGAAATATTTGTAAAAGAAAAATTAAAAACCAAACCCCAAACGCCTTTTTCCCTAGTTCCAGACTCCCTAGAATCTGGCTCCCTAGAGGCAATGGATGGCCATTGTCCTCCCCTTCATCTCCCCCACTACTCTTCCTCTTCCATACTCATCTCCTCTCTCCCATTTATCTTCTCATTCCTTTACTTTCCCCAGTTTAAAACCTTTAAATTATATTTCTCTCTCCTTCCTTTCTCCCCCTCCCTCCCCTTCACTTCCCCCCTTCACTCTCCCTCTGTGTATGAATGTTTGCATATGAGCATGCCACAGCACACATGTGGAGGTCAGAGAACAGCGTTCAGGAGTTGGTTCTCTCCTTCCTTCACGCAGGTTCTGGGATTGAACTCAGGTTGTTAGGCTCAGTGGCAATCACTCACGGGCAAGATGTTGCTAGCCCCACTTTTTCCAAAATTTAAAGACAGCAACGAAGCTATCACCTTCCTGCTCCATAGAAACAGGAAATTAACCAAGTCAGACATCCCAAGTCCACAGCCAGGGGACAGTGGTTAATCAAAGAGGAGGCAGAAACTGCCTCAAAATATGTTAATAACTATGTGCTGATTTGATTCTGAAGGAAATTCAGTCTCTCTATGTGATGGATAGCGAATGATCCATGCCAGATGTTAGGCTTTACAAAATCAAACCAAGCTGATATTACAGAGACTCAAAATTTGTCAAAACAACCTAATTCAAAACAACAGCTGTCTGATTTCTATTAAAATACTACAATTCAGTTCTCAGCTGAAATGCTACTGGGTAGAAAATAGCCTGGAGATGTAGTTTTGGGAAGTTCTAAATTAGAATTGCCTTTTATGATTTTTTTTCCTTCAAAATGGAAATTTCCATTCATATCTTATTTGCTTAAAAATATGAACATTCTGACCAGCTTTGGTGGGAATTAGTATTTTTGCTGAGCTTTCGTTTTCTATGGTACATGCTCACATACTCATGCACACCCTTTGGTGTGTGCTCACACCCCCATGCAAGCCCTCTGGTGTGTGCTTACATACCCATGCACACCCTCTGGTGTGTGCTCACATACCCATGCATACTCTCTGGTGTGTGCTCACACACCCATGCACACTTCCAGTGTGTGCTCATACACCCATGCACACCCTCTGGTGTGTGCTCACACACCCATGCACACTTCCAGTGTATGCTCACACACCCATGCACACCCTCTGGTGTGTGCTCACACACCCATGCACACTTCCAGTGTATGCTCACACACCCATGCACACCCTCTGGTGTGTGCTCACACCCCCATGCATGCCCTCTGGTGTGTGCTCATACTCCCATGCACACTTCCAGTGTGTGCTCACACCCACATGCACATTTCCAGTGTGTGCTCACACTCCCATACACACCCTCTGGTACATGCTCACACACCCATCCATGCCCTCTGGTGTATACTCACACACTTGTGCACACTCTCTGGCACATTCTCATTTTTGTGCATGCCCTTGAATCTTTGCTCACACATCTGTGCATGCCCTCTGGCTTTGTCTGTACCCATCTTAGCCACCATTCCTTCCCCCTCTGTTTCTGAGAAAGAGTCTCACAGGAAGGTCTCTGGCATCAAGCTCTCTGAAATCCTCCTGGCTCTGCCTCTTGAATGCTGATCTGGCAGGTATGAATGACCACATCCACTTTCTTTTTAAATATCTAAATATTTAACATATATATTTCTGTACTGGGTATATATTGAAGGCTTAGATGCTTAAGAAATAAACCTTTGTATTTTATACCAACTTAAATTTATCCCAAGTCCCCTTACACATTATGGTCCCTAATCTCAGTATCTAAGTCTTTGGGGCTCTCTCAGTACTAGGCATAAGAAGATGCCAGTTTTTCATTGCCTCTCCAGACAGGTAGGTGCCTTTGAGTGACCCCTGTGTTCTCTGTGCAGGGCCCTTTGTAATCTGTGGCTCTCACCTTTCCAAGTCACTCAGGAAGCTCCACCACCATAGAGAACCTGTGTGCCAAATTAGACTTCTCAGATCTGCTGCTCTTGGAATCTACTGGGGAAACGAGGCCCAGAGTTCCTTCCTCTAGAGACTACACAATGCCGTATTCCTAGACCCTCTTGAACTCTACAGGTCCATACTTCTAGAGGCAAAGGCTAGGGAGACTCTGAGCAAGAACAGACTTGCCAGCAGCTGGAGGGCTGGATGAGAAATGGGACAACTCGCAGGAGGAAAAGAAAAACAGATGACTGAAACTTGTGCATGGCTTAGGAACAATAATTACGTGGCTTCTCATTTACAG
Seq C2 exon
AAATTGACCCTCCCAGAAATCTCCGTCCGTTCGGGGTAACACATTCTGGTGGGGTTTTGACCTGGTTGCCCCCATCTGCTCAAATTGATGGCTACATTTTGACCTACCAGTTCCCAAATGGCACCGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026725:ENSMUST00000039178:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.449 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.8)
A:
NA
C2:
PF0004116=fn3=PU(51.9=93.2)
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