MmuINT0163310 @ mm9
Intron Retention
Gene
ENSMUSG00000026725 | Tnn
Description
tenascin N [Source:MGI Symbol;Acc:MGI:2665790]
Coordinates
chr1:162055484-162056726:-
Coord C1 exon
chr1:162056463-162056726
Coord A exon
chr1:162055748-162056462
Coord C2 exon
chr1:162055484-162055747
Length
715 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CTCAAACATGTTCCTTTCAGACA
3' ss Score
5.89
Exon sequences
Seq C1 exon
AAATTGACAGTCCAGAAAACCTGGTGACTGACCGGGTGACAGAGAACAGCCTCTCTGTCTCGTGGGACCCAGTGGAGGCTGACATCGACAGGTATGTGGTAAGCTACACTTCCGTGGATGGAGAGACGAAGCAGGTTCCAGTGAAGAAGGACCAGAGGAGCACCGTCCTCACCGGCCTGAGTCCCGGTGTGGAGTACAAAGTTTACGTGTGGGCAGAGAAAGGCGATCGGGAGAGCAAGAAGGCCAACACCAAGGCTCCCACAG
Seq A exon
GTAAGCAGAGAGAGATGCACCATTGGAATGAAGTGTGAACATACAGATTTGAGTGTGCATGGTACCACAGGTTGGGACCTGAGACCAGAGACTACAAGGATGCATGAGAGGTAGCTCAGCCAGTGGCATGCTTGCGGCACAATCTAAGTCCAATCCTTAGCACAAGCTGGATGTGGGGGTGCACACTTGTGACTCTAGCTCTGGGGAGGTGCACAGGTGGGATCCCTGGGGCTCACTGGCCAGCCAGCCTAACCTAGTCAGCTAGCCTCAGGACTCGGTGAGAGGAGTAAGATTGCACAGGAGTGACGCTTTTAGCAGACTCGGTGGTTGTGCGTAGAGGGTCTGGTTTTGGAAATACTTGTGACAATACCTTCAGAGTGCTCACCGGAGAGGCAGCCCTTGATAAAATGATAAATTAGTTACCCTGACAGTGTGACAGGTGTTTAATTGGCTGTCTTGATATGCCATATGTTACTATGAAGAGAATATTCCTTCTACATTTTAGGGAGCCAAAAGTCAAGAAAACATGTTAAGTGTATAGCTAGCCTGATATTGAGATAGAGACCCAGAAACTGCTTCCTCGCTTGACTCACAGCAGAGGCTTGGCTTGGTAAACCATTGCCTTGTGCTGAATGTTCTGGAAGATAAAAAGCAAGATAAGGGGTGTGTGGCTTCCATTGTTATAGCTTAGACTTCTCAAACATGTTCCTTTCAG
Seq C2 exon
ACATCGACAGCCCCAAAAACTTGGTAACTGACCAGGTGACAGAGAACACTCTCAGTGTCTCCTGGGACCCTGTTCAGGCCAACATTGACAGGTATATGGTGAGCTACACCTCTGCCGATGGAGAGACAAGAGAGGTCCCAGTGCCTAAGGAGAAGAGCAGTACCGTCCTGACTGGCCTGAGGCCAGGTGTGGAGTACAAGGTCCATGTGTGGGCCCAGAAGGGGACCCAGGAGAGCAGAAAGGCCAACACCAAGGCCCCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026725-Tnn:NM_177839:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.464 A=NA C2=0.674
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.8)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
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:
GGGTGACAGAGAACAGCCTCT
R:
TCTCCATCGGCAGAGGTGTAG
Band lengths:
355-1070
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: