MmuINT0163500 @ mm9
Intron Retention
Gene
ENSMUSG00000015829 | Tnr
Description
tenascin R [Source:MGI Symbol;Acc:MGI:99516]
Coordinates
chr1:161849075-161853558:+
Coord C1 exon
chr1:161849075-161849236
Coord A exon
chr1:161849237-161853394
Coord C2 exon
chr1:161853395-161853558
Length
4158 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TCATTTTTGGTTTTTGGCAGGAG
3' ss Score
7.77
Exon sequences
Seq C1 exon
GGCTAGACAACATCCACAGGATAACAGCCCAGGGCCGCTATGAGCTGCGTGTGGATATGCGGGATGGACAGGAAGCAGTCTTTGCCTACTATGACAAGTTCGCTGTGGAGGACAGCAGAAGCCTGTACAAGATCCGCATAGGAAGTTACAATGGCACTGCAG
Seq A exon
GTACTTGTGGGCCCCGTGATGACCCCAGGAGCATTGGATGTGTATTCCTGTCCTAAGCTGCAGCAGAACCAGCAGAATTCACCGAGTTCGTGAGCTGACTACTAGCCAGGAAAGAGGCATGGCTAGCTAGGCCACTGGCTCTGATCCTGCCTGTCCATTCAAGAGACTTGGAATCAATTTCTTGGGAGTATCATATGGAGAATTATAATAGTGATGTCATCTGAAAAATGATAATAGTGATGTTATCTGCTAAATTATAATGACGATGTCATCTGCTACATTATATATAATGCTAATTATAATAGTGATGTCTATCTCACTTTACAGAGTAGTCAGAAAAGTTTCTATAAGCTCAATATGTCTGAAAAGTTTGCTCAAAAACAATGCAGGTTGAGAGCAAAAGGTTGCTTATCATACCTAGATTAACCAGAGTGGACTCCCATTTAGCAAGGGCAGAACTGTTTGTCACCTTATTTGACATCTCCTTGCAATGGCTGCTGGAAAATGACCTTTGAACTATGAAACAGTTCAGATTCCCCATTCTTTGAGCTGACTGTCCCCCCATCCAACCATCAGCAGCCATCATAGCACCACATGAAGGAGCAGAGGACATTGTTTAAATGTCCCTCACTGGCCATGTTGCTTTTTTGTTCTACCAAGTGAACCATACACCTGGTTGGGTTCTCAGTGGTGGGTTTTAGGGCATTTTTACCAAGCAGAACAACCATCTGTTTGAGCTCTATGTACACATAGTTTTGTGAGAACATACCACCAAGCTAGTCCCTAGCCTTTGGCTAATGTGCTCTATTACACTACCTTCCATGAAGCCTGGTGTGCCAGGTGTGTTACTGTTTGGTACATGGAGTTACCAGACATTTCATGTCTCCAATTTTAGAGCTAAAGGCTGGTGTTTAATGTTAGCAGTATTTCCTATGACTCTTGGAATTAAAATGAACATCAAGGTGTTACCCCTCCAATTACTGCATCTGCTCCATTATTTCCTTTCTCAGCCAGATACTGTTATTCAAAAGAGAAGACATACTTATCTTTGTTATTGTTCACAGTTGAGCCATTCGCAGTGGCAATCAGAGAAGCCTGAAGAGCCCCAACAAAAAGGTCCAATTTGCCACACTTTGAGCATAAAACAGCCATTGAAATGGACATTAAACAAGATGTCATTCTAAATCATTTCAAAACGAAATGGATACTATTCACTCCCTAGAATTAGAATTGTGTCTACAGAAAAGGCTTTCATGTTTCTCCTATGGGAAGAGAAACAAGCTCACCTACCACAGTTTCTGTCTCCCCTCAGTTCCCCCTCTTCGTCCTTCTCTGTCCAATCCCACATGTTGTCTGTCTACCTTGGGGCCAGCCCTTGAAACATCTTCCCCAGCCCAGTCTCTGTGCCACACCTCAAAGAGGGCAGAACCGTTAGATTGCACTCCTCTCCCTGTGTCAGAGGTCAGTGAGTCTAGATCTTGGCTAGCCAGTCATGGACATTAACAACAATTCATCCATCACCTTATATATTCAGTTCATCTTTTTCAGTAAGTAAAACCCTGGGTTTATTTAGGTTACCCCATCTCTAGGCAACTACACACCATTCATAGAAAACCATGCCCTCCGTCCTGGCATTTGTAACAGTTCCCAGTTCTTCAAGCTGTTACCACTTCTCCAGGCCTCACTGGCAACCAGCCACCCCAGGGCCTCCAGTCCAATTACAGCCCTTTACTCCACATTTCTGAAGTCCCGAAACTTCCAAAACTCTAAATAGAACTCTGCTGGGATTCAAACTGACACTTCTAAATTGTGTCTTTAATAAGAGCAGAGCCACACTCACTGTTCTGGTTTTAGAGCATCTAACAAGAACATAAAACATGGACTCTGTAGTACCATCCTAGTTTAAAGAAAACACCAGGAAATGCCTCTCTGCAGAATAAATAAGGATACCCATAGGAGGGTTTCTGGGGTATATAGAAAGGATCCTTGAAATCAGCCTATCTGACTGAAACCACTGAAAACATCGTCTGGATGAGACATACCAGAAAAACAAGATTTCGTGGAAGGGGAAGGCTTGATGCATTACTCTCTTGGGCAAACTGTGTGATTGGAAGGATCAGGAGCTGTGAGCAGTGACACACACCTATAATTACAGCATGGGAAAGGCTGAGATGGAAAAATTGAACATTAAAGCTAGCCTGGGCTATATAGCAAGATGAAGTAGAAAGGGAGAGAGGGGCAATGTGGGTAAGAAAGTAGAAAGTGGAGGTAAAGGGTGGAGGAGAGAAGGGGAAGAGGGAGGGAGGGAAGAGCAGAAATGTGGAAAGGAAGAGAAAGAAAGAGAAGATTAATTATGGAAAGTCTTGACACTGAAAGAAAAATTGACTTTTTACATGACTGGAGGTCTTGTAAGTCCTGAATGGCATAATGGGATTTGGATTTTAGAAAGATCACTAGGACAGGTCCAATCAAGATAAAGTAAATCTGAGTGAAGAGCGGTGAGAGCAACTGGTGGCTGCATTATTAATCCTGATGGGAGATAACAGGAGTCCGTGCTAATGTCAGAGATAAAAGGAGTCCATGCTAATGTCAGAGCTACGAGAAAGGCATGAATATGAACAGGTGGTCAAGAGTGAAAACCCGGACTTAGTTCATGTCTGGAATATACGAGGTAGATGTATGAGGCAGAAAAGATGAGGGAGGATACAAAGACCTAGGGGACCATGTCTGTGACAATCAGTTGGCAACATCAAAGCAGAAGCCAGAAATAATTGTTGGGAGAATAATGAGGATACATTCTAGTTTGCAGAAGGTGAGAGGATAACAATGCAGGTAGGCACAGCACAGATGATGAATAATGATTAAAGCATGGATTGCTGGAGAGTAAAATTAATCCAAAAATTTTAAGGTAATAGGTATGAGTATGACTTGAGATAAAGGAGATGAAAATGATAGTCTTCTGGAGAGGGAAAGTAAGACCCTTTTCAAGCAGAAGTAGATAACAAAAAGTTGTTTCAGTTGGTGGGATTGGCTCTGGATGGGCACAACACCAGAATCCTTCAAGATTATATGGAGATGAGAATGGTGTGACACACTGCCTCAGGACTCTCTTGAGCGGTGAAGGCTTCCTTGGAAGACCCAATAGCCCAGAGTTCTGTGGCTGCAGAAAAGAAGGTGCTGAAGCCTTATAGCTTCTATAGCTTGGAAGCCATAGAATCAAAACACTGTCCCTCTTAGGGGAAAGCAACCTTAGCTATAGTGACTATCACTTTCATCTGATAAATAACATGAGGCCCCTTCCCAGCATCTCTAACCACAAATCCTGCCAAAGGCTTCACCCGAGTCACTGTAAGTGCCTGATGGTCTGATCTCTCAGTGAACCCTGAGTTCACCTGAGCCGCTGCATAGCACCCCTGCCAAGAGAACACCCGGTCTCCACTTGTCTTTGAGAAAGAAAATCTCACCACAGGGTCAGGTAGCCTAGCTGGTAGTATTAGGCAATTTCTCTTTACCTATTTAGGTAAATATTTTCCTCTTTACAGTCTCTCCGTAGTCATCCTGACACTTCCCCACCAGGTTTAGTTATGTGTTCTTATTTAGCGAAGCTTCCTCACATGGAAGCTTTCTCACCTACCCACATCTCATTTGACATGGTTATGTTTCCGTCACCGTTTCTTGTTTATTGGTGCTCTGGCTGCTGTTGTTCCTCTTCATGGGCAGAACCAAGTTCTCACGGTGGGGTATTGGGTACAGGCTGATCAGGGACAGCAAGCACAGGGGAAAGCCAGGATGAACTTACACTGTGAGATCCATAAGGGTTGGAGGCGTCGTGGCTCCTTACTGTCTCCAATAGACACAGTGGGACCATGAGTGCTCTGTGCCTCAAAACGGCCAAAGGGAAATAGACAGAGATGCTAAGATGGAGCTGTCTGGTAAAGTTCTCAGCAAATGTTCAGTGATGAATAGAGTGGGAAACATAGAAGCGGTTCCTCCCTAGCCCTACCCTATGAGGTAATATAGAGGCAAAGGTCTGCATAGCCATGACGCAGCTCAGAAGGAAAAGGGGAAGTGAGCCAGGGTTCCATGTGAAAACCAGATGTCCACAGCAAATGGAACAGCCTCCGGAATGGTTTTGTTTTCATTTTTGGTTTTTGGCAG
Seq C2 exon
GAGACTCCCTCAGCTATCACCAGGGACGTCCTTTCTCCACTGAGGACAGAGACAATGATGTTGCAGTCACCAACTGTGCCATGTCCTACAAGGGTGCTTGGTGGTATAAGAACTGCCACCGGACCAACCTCAACGGGAAGTACGGGGAGTCCAGGCACAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015829-Tnr:NM_022312:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(25.7=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=100)
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: