MmuINT0162913 @ mm10
Intron Retention
Gene
ENSMUSG00000028364 | Tnc
Description
tenascin C [Source:MGI Symbol;Acc:MGI:101922]
Coordinates
chr4:63995541-64000185:-
Coord C1 exon
chr4:63999913-64000185
Coord A exon
chr4:63995814-63999912
Coord C2 exon
chr4:63995541-63995813
Length
4099 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTT
5' ss Score
7.51
3' ss Seq
AAATTCTCTGCCTTCTTCAGAGG
3' ss Score
7.06
Exon sequences
Seq C1 exon
GGACAACTCCCAATCTGGGAGAGGTCACTGTGGCCGAGGTGGGCTGGGATGCCCTCACGCTCAACTGGACTGCTCCAGAAGGAGCCTATAAGAACTTTTTCATTCAGGTGCTAGAGGCTGACACGACCCAGACTGTCCAGAACCTCACAGTCCCAGGAGGACTGAGGTCAGTGGACCTGCCTGGGCTCAAAGCAGCCACCCGCTACTACATCACCCTTCGAGGGGTCACCCAGGACTTCGGCACGGCCCCTCTCTCTGTTGAGGTCTTGACAG
Seq A exon
GTATTTTAGACCGGTTCACTCCTTTTCTCCTCTCCCTGTCTCTGCTTAAGAGGAATCCCATCTCTAAATGAGACTTAGACCCTTCCATGTTGGGGAAATCCTAGTGAATCACTTCTACTTCAATATCTTATCCCTTATTTGGGCAGGTCCTGCTCTTAGTCTAGTAGACAGCTCCAGACAAAATTCCACCTACTCTTCTTTTTCAAAAGTGAGAGGTGACTTCTCTCGAAAAGTATGTTTCAAATTATAATATCTAAGAAACTTGAAAGCAAAATTTGTAAGTGAAAAATAAAATCACTCTGAGCTCATTTTACAAATACTCAAGAGCTTCCCATAAACCTAGTGGTATATCAAGAATGGAAGTTTTGAGCTCCTCCAAAAACTACCTTCTATTCCCAAAGGCTGAAAGAAAGCCTTGGCTTTAATTCTAACAATTGGAGTGTGCTCAGTACTGCAGTAAATCACACATCTGTAGTCAATACAAACCAAAGAGCTCATCTCAACTTTAGTCAAACCCCATCTCACCTGAACCCCAGAGAGCAGTTCCCTTTATAGTAACGTCATCCCTGTGTATTCTCATGCAGAGAAGGTTCCAAGTCTGGGAAATTTCACAGTGACTGGACTGAGATGGGATGTTCTCAAACTGGACTGGAACATACCAGACAGAACTTATGACCAGTTTATCACTTGAATCCAGTAGAATAGCCAGGCAGAATGGGCTGGCCTTATTATTCCTGGTCGCCTGTGTTCCTTTGAAGTCCCAGGCCTCAGGGCTGGTACTCCCTACACAGTCACCCTGCACTGCAAAGTAAGGGGCCTCCATACTAATGCACCTGCTGTAGAGTTCATCACAGGTACATGACCATTCTGGACTGGATTTTTATATATGCCAGTCTGGCTGTTCCCAGAATAGCAAAACTCCCTCATAGGTAGGTCTTGCCTGAATATGGTTTGCAGGCAACATGAAACTGTGACTTAGCAGGTCTGGATTAGAATTCTGTAGTACTGGCTGGATGTTTTCCTTTGCATCTCTGAGCCTTTTTTTCTTGCCATTGAATCAAAAATGATACCCTGCTTTAGTATCCTTCCATGAGCAATGGATGGACTAAGAAATGAAAGGGCTTGACAAAATGTTCATCATCTAGCCAGTGTTGAACAGCTAAGTGAGTAGTTGTATTATTCAGGGTCTTCTAGAGAAACAAATTATAGAATGAATATATATGAGATTTATTACGGAATACATATGGGATTTATTATGAATATAAATATTGAATTTATTAAAATGGCTTACAAACTGTAGTCTAGCTAATCCAAAAATGGCTGTCTACCAACAGAAAGTCCAAGAATACAACAATTATTCAGTCATGAGACTGGGTGTCTCACCTGTTCTTTAGTATGCACTGCAATCCTGAATACACAGGCCCTCATGCCAGAAAAAGAATGGACTCACCAGCAAGAGTGAGAGTAGACAGACAGAGAGGGAGCCTCATTCTTCTGTGTGTTTTGTAAAGGCTGCCAGTTTCATAGAGGTTACCAGCAGAAGGTGTGGCCCAGTTAAAAAGTGCTTCTTCCTACCTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCTGGATTAAAGATATATCTTCCTGTCTCAAGAGAGCTGGATTACAAGTGGGTCTTCCCACTTCAAATGATTTCATGAAGAAAAAAATCCCGACAGGTGTGTCCAGCTGGTTAGGTTTTAGTTCATTCCAAATGTAGTCAAGTTGACAATCAAGAATCGCCTTCACAGTTGTCAACCCAACCATGGGAAGACAAAGCACAGGAAGTGGGTATTTTTTTGGTGCAGGAGAGCAGAACTTTTCAGAGAAATCTTTTCAATACTGCCCTCAGAGACATTAAGTAATACCCAATTCCGAGTCGGATCCCTTCAGATCTGGAAACTGATCTAGTCATCTTATGCCGAAGTCATCTAAGCCCATTTCTGAAGTGCACTTAAAGTAAGAACCTTTCTAAGAAAAGATGGTATGTTTAAGTTCCATGTTTTCCATTTAAGCTGAAGAGAAAAACAAATTCATCTCAGTCCTTGGAATGCCCCTTGAAATATGCTGTTCCATCTATCACACAGAGCTTTATGCTATTCCAAGGAGGATGGAATGAATGGTAAAATTTGTGGTGATAAAGTTTTGATGCTGTACCCCTCTCCATTTGCCTTGTATCCTTGTATTTTGATAATGCCATCAAATTACCTAATTCAAACCATCAATTTTCCTACTTGTTTATATATATATAAAGTAAACTTGTCCATTGCTGTGATGTACACACATACCAGATATAAGGAAGATGATTATGTTCATTTACCTAAGTCAGCCAGGTTATCATGTTGCCTTATTCCTGGACTGGGTTGAGATAAACAAAGGTCGTCTGGGATGTCTGCTCTAGGTCAGGGATGCTGATGAGCTACGTGTACAGTCTGCAAGCCCTGCTGCAGCTGCCTAGCTCCTTTAGTAAATGGAATGTTCTGGTGAAGTCTTTCGTGCAGTAGATAAACAGTTCTCAGCAAGTGCACTTCTGTCCCCAGACCTCTCAGAAAACCCTGGGTCAGTGTTGGGACATCTTCCCCAAAGGATCCTGGGACACTTAGGAACAAGAATTATACACTTCTTAAAAAAAAAGGCTAAGATCTCTAACTTCTAATTCATGGCCACTTCTGCCTTAGGAAGATGGATAAGGGTATACTTCAGTTTGTAAAGGGCTTGCCTCTCATCCTTGAGGACCAGGGTTTGATCCTCAGATCCTCATAAGGGTATAGAAGTATAAATACTTAGAATCTCAACTGAGAAAATGGGGGCAAGAGGATTATATTGATGATTTCTGGAGAGCCAATCTAGTTGAAATGGTGTGTTCCAGATTCAGTCAAAGACCCTGCCTGAAACTAAAGTTAGGAGTGATTGAGGAAGACATTTGATGCCAACCTCTGGCCTCCTGCACACAACTGCATACATATAAACACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCTCTCTCTCTCTGTCTCTCTCTCTCTCTCATACACACACACACACACACACACACACACACACACACAAATTAGAGCTGAGACTGTACTGAATCCCAAACAGTGAATTTTTCCATACCCCAAAGTTAGACTTTCTTAATCAGCAATAACTGAAGATCGTTCTTACACAGTTAAAAAGAACAACTAACAGTGGGCCCTGCTTTGCACATGTACTAAGCAATACAGACTCACTCTTAATTAAAAGTAAGCAAGCTGACTTCACACAGCCTTGCTTTGTGATGCAGCCATGCTTCATGCCAAGGGTTAAGACAGTGGGAGAGTGCAAGCCAAGCCAGGAATCTATTACGTAACATCATGTCCTTGAAAGTTGCAGAAAAAGCTCAGAGATAAACCAGACCACCTGTCAAAACTTGGGAACACGAGTTCTTCAGAAGCCCAAATACAGAGCAGGTAGCCAGCCACAAGATGTCCCTTCACCTCAAGTAATAAAATGAGGCATGGCTTCGCATATGACTAAGATATTCCAAAACACATCAACAGGCTCTATGTTTTATGTTGCCATTTATCAGACAGTTTCTGTGCCTTGTGTATGACATGAAGATGCTAATAAATATCAGGTAATCACAGAACCCAATGAGATGGTACTGTCACTTCTACTTAAAACTGAGGCTCAGAGAGAAAGCCAGACTCCCAAGATGATACAGCTTGCCAGGTCTGTGGACCTCCAACTCCTGTGCTTTGACTACTCCTACTTCCTTACCCCTCTACAATCCCACATTGTCCTGGTGCCTCTAGCCACTGCCTGTGCATTCCCAGAGATTTCCATGCTTCGGCCTTTCAAGGAGGAATGATGCAAAGTTTCCTTTTCTGCCTGTTTCAACTCTTCTCCAAAACCATAACCAGAGTAGCAAAAATCTGAATACAGAAATACCCGGAGATCAGGAGCTACAGAAACAAAACACTCTTTCTCTCCCCTTCTGCTTTTCTGGAGTAGGGTTGTGGGGCATTCGGCTGCCTTGCTTGGTTTGCAGCACTAACAGCAAATTCTCTGCCTTCTTCAG
Seq C2 exon
AGGATCTCCCTCAGCTGGGAGGCTTGTCTGTGACTGAGGTCAGCTGGGACGGCCTCACACTCAACTGGACCACAGATGACCTGGCCTATAAGCACTTTGTCGTTCAGGTGCAGGAGGCCAACAATGTGGAGGCCGCTCAGAACCTCACGGTACCCGGCAGCCTCAGAGCTGTGGACATCCCAGGCCTCAAGGCCGACACCCCTTATAGAGTCTCCATCTACGGGGTCATCCAGGGCTATAGAACACCGATGCTCTCTACTGACGTCTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028364:ENSMUST00000030056:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.076 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=89.1)
A:
NA
C2:
PF0004116=fn3=WD(100=88.0)
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
- 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