MmuINT0163506 @ mm9
Intron Retention
Gene
ENSMUSG00000015829 | Tnr
Description
tenascin R [Source:MGI Symbol;Acc:MGI:99516]
Coordinates
chr1:161793769-161798416:+
Coord C1 exon
chr1:161793769-161793919
Coord A exon
chr1:161793920-161798146
Coord C2 exon
chr1:161798147-161798416
Length
4227 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
ATGTTCTGTTTCTCGTGCAGTCA
3' ss Score
9.6
Exon sequences
Seq C1 exon
AACAATGAAGGAGGGGTGATTGCTCAGCTCCCCAGCGATGTGACGTCCTTTAACCAGACAGGACTGAAACCTGGGGAGGAGTACATTGTGAATGTTGTGGCTCTAAAGGAACAAGCCCGGAGCCCTCCTACCTCTGCCAGCGTCTCCACTG
Seq A exon
GTAAGTGCCTCCAACTCTTCCATGGCTGCCCAGAGAACTGCCAGCCATGGATGGATGAAAAAGATTCTATGATTCCTCAGAGAGCTGAAATGATACAGGGACTTGGAAATGGATATACTCTGCCAGATCCTAGCAGAACATATTCCTTAGTGCTCACCCTTGCAAGCATACAAACCAGAGAAAGTGTCCCATGGAGGAAATTCTCTATTAATAGTTCCAGTATGTTTCTATTAATCTCACTCATTAAGCCTCATACACCAACCTCCAATTGTCATAAACCTCGAAACCAGCAAGATCCAACCCATTCTTGCTTACTGTAAGGCTTGGAGAAATTCAATCAAATTTTCCCAAACCTCAATCTGTTTTTATAACACCTTCTCCACTGAATTAGTATGAGGATTAAGTTGGATGCAGTGTACTACATAATTAGCACTATACTGATGCATGCTTAATACTTAGTATATACACATATACATGAGAAGTAGAGCCAGTAGGGGGCAGACTATTCGAAAGCAGTAGGCAGTGTTGAGTCACTGAGCCAAGTGACAGTGCAAGTTGATTATTCTTTTGGTGCCCACAGTTTGTCTCATTCAGGATCATTATATTTTCAAGATCAATTCATTAATCATGTCATATTTTGCCTTATTGTCCTCTTAGCTGACAAAGGATTTCAGCTTCGGTGCTGTAACTTAGCAACTGTGATATACACCTGTGTGACTCCTGAAAGTGGCTCAGACGTGATAAGTAGCATCTGGTACTAGGTATTTTGTCTCTCAGTTGTTGATCGAGGTTAGATGTGAAGCTTATGCAAGTTTCCTTGTTAGCAACAAAAACTAAGATGAGTATTCTTTTTCATAAACAGAAATTGATCTACTACAAAGCCAATCTTAGGTCGAGAACAAAATGTTGGCTTAGGTAGAACAGGTAACCACAGTACTATTCAATAAAGCTATGGGTGTAGTTTGATTGCTCAAATTTAGATATTTGTGTCCAAACTAACAGCATCAGGTTCTAAGACTTAGAGATTTAGTCTAGAAAATGTTGATTTTTTTTTTAACTATTGTGGCATTGACTTAGGTTGTATTGGTGCATCAAGGTTCCAAAGCCATGTCTCAAAGTCAGGATCAGGAGGAGATCTGCACCTTTAATATTTTTTCTCTCATATTGTCAGTCAGGGAAGTTCTGTTTTGATCTCTTTTCTATTTTGTTCATCCATTTAAGATTATTTTTTCTTAAAAACAATATTTCTCTATGGGGAGGAGGCTCAAGAAAGTGCTGTTATAATAAAGTGGACTTCAGAAGAAACCCCCCGTGGAAGCAAAACCATGATGGTCTGGAGGACTCTCCAGAGAGCCACAGGCACAAATCCATCCTCCAAGGTTATGCTGGATTCTGAAAACTAGACGTTTGCTACCAGGATAGATAATGATATGAAGTGTCAGCAGACCATCCCTATCCTGATATTAAAAACATAAATAAATAACAACAACAACAACAAATATTATCAGGTAAAAGGCTAAAAAGGAAAGATGCCTCAGAAAAGAGGAGAGACCATTCCAGTTGTGAAGCTTGCTTCCCCAAGTATGGAGGGCACTTAAAGAAGCAATCCAACTCTGTCTCAGTTTTATATCCAAATGAATTTTTAAAATAAAATTTGAAGTGCTTTTTAAGAGTTCCTTAAAATTAAAAGCTCCAGATTTAGAAAGCCATGGGAAAGCTGAGCAGCTTTCAATTAAGAAAAGAAGTCCTACTTAATGGCTTTGTGCAATGTGCAAAATTACAAGAAAAGTGTAAAAAAGAAAAGAAAGAAGGAAAAAAAAACACAGAACAAAATTGTATTTGTTTAGAAATTCGTGATGGAATTGAAATCAAGGTTTCTACAGCCTTGATTGGAACAGGTCATTAAGACCAATTGACCAAAGAAGAGTGGTATCCAAGATGCAGCAGGAAAAACTGGCTGGCTCCCATCCCTGTCTGCTGCTTTTAGGAAACAATCATTTGATTATTTCCTTCTGCTAAGGTCTGACCTACACCAACCCCCTCCTGTGAAGCTCTGAGTCCTCATCTGCACTCAGACTGGCTTTTTCCAGGCAGACCATTTTATGAATGCAAATACAAGACCTCCTGCAGCTAACGCCCTCTGTGCTACATAATCACATTCTAATATGGCCAATCCATTATGATTAGGTTTTTTGGATCTAAGGAGTTGAAGGACAAAAGCCTTATGTGGTTATCTGATTTTTCCCTCTGCCTTTTTTCTTCCTCCATCAAAATGCTCCAGTTTAAAAAAAAAAAAAAAAAAAAAAGTTCTCCCATCCCTTTTGCAAGGATTAAGAGGCTCGTCCATTCCTTTCATTCACTCAGCACTCTTGAGTGTCTACAGCGTTTTAGACATTGAACTTAAGTCATAGCTAGGAGGGCATCTAGCCATCCTGCGACTAAAGTAAGTGAAATAGCAAAGGTCCAAGCCGTCTAAAGCTGCAGCCTGTGGGGGAAAATCAGATGTTTTCTCTTTAAGTGCATGGCTACCTCGAGTATGATAAATAGAACTTCAATTAACTCCAAATCAGGCAGCACCAACATGATCTAGTGATTTTCTTTGTAGCTGATACTAGACTGTTCACTAGGAAATAGCAATGGGCTGAGAGTCAGGCATCTAGAGAATGGCTCACATTTGAAAAGTTAAGGAACTAACTCTAGGTTAGCCTGAATTCATCCTAATGGAGACACCCATGCTGGAGACAGAGTTGAAAGTGGCCCAATGTGTATGAGTTTAAAAACAAATCCTAGCCAAAAATTACAGAGGAATCTATGGAAAGAAACTAACTGAAGCAAAAGATTTACTGGAAGGACATAAATTGTTTCCTAGAAACCCAGGACCAGAAATATATGTACCTGAGACTCATAAAATATTTGAACCATAAAATGAAATATCAGAAATTGAGTTACTCTCTGTATCTTTCCATAAGCCCACATAGTCACTCATTTCTGCTTGTCTGTATACCTATACCTCCCTCCTCTCCCTCTTCTCTTCTCTCCCTCTCCCTCCTCCTTACTCTCCCTCCTCCCTCTCCTCTCTCTCCTCTACTCCTCTCCCTTCTCTCCCTCCTCCCCTCTTCAGTTCTCTGCTCCTCACCCCCACAACTAATGCTCCCTATTTCTCTGTAAGTATAGTAGAGAATCTCCACACCAGCCCAGCCTCTACACAGGCTAACTCTAGAGACAATTTCTAGAACCAGAGAACTTGGAGAACTCTTTGTGTCCTATGTCTTCAGTTTCAGAAAAATGCAGGCACTTATGGAAGGAGTGGAAGGAGAGAGAGAAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAAGGAGGGAAAGGGAGAGGGGGAGGGAAAGGGAGAGGGGGAGAGAAGGAGGGAGGAAAAGAAGGAAGAATTGGAAGGAAGGAAGGAAGGAAGGAAGAAGGAAAGAGAGAGAGAAAGAGAGAAAGAGAAAGAGAGAAAGGAAGGAAGGAAAGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGAAAGTGGCTCACAGAAACAACTCTAGAGTAGAAGCCCTTTTAATTCAGATGAGCACATTTTCTTGACTGGCATGTTTCATGTCCACACATGCAAATGCCAGTCTGGTTATCCAAGCCAAATAAAGCTCGATAGGAATAACTTCTGAATTCTCATAATGAGACTTTGGCAACCATGCCTGGGTCTCATTTGTCTCTATTAACTCATAGAGCTTTCATCTGGGCCCAGTGAAGATAAGATCTGGGCAACAGGCAAAGGCCAGAAGTTTCTTCTCTCCACCTGGGCCATGGCCTCTGAAAGAAATAGGTCAGAGTCATCCAAGCTAGTAAGAGTCCTTCCCTTGCCCAGACCATGAAATGCCAGTGCCTGAAACATATTCAATGAGTGGAGAAAGAGTCCAAGTTCTAGGAGAACTGAATGCCAGTGTCCATGATGTCAACAAATCTGTGCTTCAGGAAAGGACTTCCTCTTTTGTATCTCATATTCCCCATCTATATAATGAACGAGGAAACCCATCCCACTGAGCAAGCGAGTGTAAGAAGGAAAGAGGTAAACAGAGGCCAAAGAAGGCTTACTCCTGAATCAACATCATGTTCTGTTTCTCGTGCAG
Seq C2 exon
TCATTGACGGGCCCACACAGATCCTGGTTCGAGATGTCTCTGATACTGTGGCTTTTGTGGAATGGACCCCACCTCGAGCCAAAGTTGATTTCATTCTTTTAAAATATGGCTTGGTGGGTGGCGAAGGCGGGAAGACGACCTTCCGGCTGCAGCCTCCCTTAAGCCAGTACTCCGTGCAAGCCCTTAGACCTGGCTCGCGCTACGAGGTGTCCATCAGCGCAGTCCGGGGGACCAATGAGAGTGAAGCCTCAAGCACCCAATTTACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015829-Tnr:NM_022312:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.220
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(53.1=84.3)
A:
NA
C2:
PF0004116=fn3=WD(100=90.1),PF120283=DUF3515=PU(0.1=0.0)
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: