MmuINT0163492 @ mm9
Intron Retention
Gene
ENSMUSG00000015829 | Tnr
Description
tenascin R [Source:MGI Symbol;Acc:MGI:99516]
Coordinates
chr1:161819415-161822259:+
Coord C1 exon
chr1:161819415-161819561
Coord A exon
chr1:161819562-161822139
Coord C2 exon
chr1:161822140-161822259
Length
2578 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
CCTCTCCTATTCTTTTCCAGCCA
3' ss Score
10.27
Exon sequences
Seq C1 exon
TGGGACGGCTAGACAGCTCCGTAGTGCCCAACACCGTGACAGAGTTCGCCATCACCAGGCTGTATCCAGCTACTGAATATGAAATAAGCCTCAACAGTGTACGGGGCAGGGAGGAGAGTGAACGCATCTGCACCCTGGTGCACACAG
Seq A exon
GTAAACATGGCTCCCTTGCTGGGTGTCGGCTCAGGACATAAGCAGCAGCCTTGAAACAAACACAGGAAGCAGAGTGAAATCACTCCAGCGCATACAGTGGATACTGGCTCCGGGGCCTGAGACGCCATTCTTTGGCTCCTCTGACTCACTGTGTCCTTCAGGACAAGTTGTGGTTTCTCTCCCCACAGACTGTTCTTTCTAATTATAGGAGTTTGGTGAGTCACACTTGAGGAGGAGTCTTGCTCGTTCAGGTTCAGAATGTTCATGGAACTTCCTCTACGAAGAGCGCCCTTTCAAAGACGCATGATGGAGACAGATTCCACAGCAAACATTTGAATCATAGGATCTCTTTAAGTCTTGGGGGTTGAGGAAACTTCAGAAAAGCATTGTTATTCCAGTTTCAGGAAACTAGGGGTGGATTATTCATCATATACAGCCACCCCATAGGTGTATTGCCTTTGCTCCAGGGAAAAGGCTCTAAGTCCATCACCTGTATGAAGGCAGTAGAGGTGAAGGTGACCCTTTGTGGCATCCCCAGCTGCTTTCAGGAACACTATGTAGTTCTTGTTCTCCTGTAGGAAATGTCCTCTGTGTCCTCAGGCCCCTTCACAGAAGGAAGGTGGGGAAAAGAGATGGGCTTTAATATGAAAAATAGGGAGGAGAAAGTCTCCTACCATGCCTTTTTTCAGAAAACTGGCTCTTTGGATAAGCCTGAAGATAGGGCTCCTTTTCTGTAACTCCACTAGCCTCCCTTCTCTGGTCCTTAAGCAAGTATATCACATAGGATTAGCACAGATTTGCTCTAGATGGCAGTGGAAGGCACAGCCATCAGTTTCTATCCTCAACATCGAGAACCTTCTAGTTAAACCACAGTTTCCACTACACATAGGAAAACATTCAGCCTGCCTCATTAAGCGAACACCTGGATATCCCAACGCTGCTAAATTTCCCTAGAGATGGTGATTTCTGAAGGAGGAGAGTGTGCCTAAGGAGTCCTCACTGCTTTGTAAATACTCTTACAAGCGCCAAAACATTATCTATTAACACAGTGACCAAAACGTCATTCAGAAACATAAAAAGGTACCTTTCGTAGTCTCCCTCCTTCTGGTAGATGCACTATGTTTTGTCAGTGATCATTAAAGCAGGCAGTGGATAAACATTGACCAGAAGTAATGACCATTCAGCCAAGAAAGCCTGAAAATTCTGCCATATTTTCTCATTGAAAATCATAAAAAGGATTTCGAGAATATCGTGTTCCCAAGATAAGAGTGTTGTGACTCAGCCCAAAAGCTAACTCGTGTGATTCTTGGCCACAGGCAGCAGACATCACAAAAGCAGAAACTCAGCAGCACACCAAGCCACCCTGTCATCTTTCAAGTTAGTCAGACTGGTTCTGGTAACTTCCAGTCACTGTGCCACGCTCAGAAGTGTCTCCGGTTGTTCTTTTCAAGTCATCACAATAATCTTAAAACTTGTAGAATGACAGCTCCTTCAGGAGATGGTACACATCTCAGAAATCATCCAACCATAGACTCTAATAGGAGTTGAATTTAAAGACGTTTTTGAAAGCACAGATTATGAATAAAATTCAAAACACTGAATTGTAAAGTCTTTATTTCTTCTTGTTACTTTGGGATGAGGAACATAAGCAAAAAAAAGGGGGGGGGAGAAAGAAAAGAAAAGATAGCAAACACAGCTCATTTAATCAAAGAACAGAGGTAGGCCGATGGTAGGTCGTGGTTCCCAAACGTAAACTGTATGACTCACATTGAGCTAACGCTTAAACTGTTCCAATGCCATCCATTTTATAAATAAATTCCAACTTCATGAAAAGGAAATACATAAGTAAATCCAAGAGTTACAGAATACATGGGTGAGTAAAATTCATAATTTATTCATGAGCAAACTTTCTTGTCCTGCCTGACAGGCAATCTTGGCTTCCCTGAGTTTATACACCAGCCCCCCAGCCCCCACCCCCACCCCCACCCCCACTCTCTATGCAACAAAAAGGATGCTTAGAACACAGTCCAGAGTAAAGCTTGTGGGTGGTGGTGTAAGAAGTGGCTACGACTCTGTGACCACTGGCACAGGTGCGCGTACACTTCCACCACACTTCCCTGAAGTTCACAGTCAGCGATCTTCCCACAAAACTCACTCTTGCATGTGTGAAAGAACAAATGGGCTGGAAAGCAGGATTATCTCAGGAACTAATGAATCAGAAAATTTTCTATCACTTCTTTACGCCATGTGGATTGAAAGGTTCAAAATACAATAGGGTATTTTGAATGTCCAATTTCCCATCGAACCCGTCAAAGAATTCTGCACACAGTAATTTAATGAATTAATTTAAAAGAAGGACTTAGGGCAATTGGGAGAGAAGTGGATAAGATAGGAGAAAGGGTGCAAAAAAAAAGGTATCAGTGGAGCCAGACAGGTAGAAAAAGAATCAGTCTCCACCCCATTATTTTACCCAGCACAGTGACAGGTGGTTACCACATAAGAAAATTCTGATGGTTTGTGGTACTTACACCTTGCAGTTCCTCTTTCTTTAGCCTGATCCTCTCCTATTCTTTTCCAG
Seq C2 exon
CCATGGATAGCCCCATGGATTTGATCGCTACCAACATCACACCTACAGAAGCCTTGCTCCAGTGGAAAGCACCCATGGGTGAAGTGGAAAATTATGTCATCGTCCTCACACACTTTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015829-Tnr:NM_022312:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.2=82.0)
A:
NA
C2:
PF0004116=fn3=PU(48.7=92.7)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: