MmuINT0162921 @ mm10
Intron Retention
Gene
ENSMUSG00000028364 | Tnc
Description
tenascin C [Source:MGI Symbol;Acc:MGI:101922]
Coordinates
chr4:63967217-63970444:-
Coord C1 exon
chr4:63970314-63970444
Coord A exon
chr4:63967350-63970313
Coord C2 exon
chr4:63967217-63967349
Length
2964 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCT
5' ss Score
7.56
3' ss Seq
ATTCTTTTGCCTGCCCACAGGAA
3' ss Score
11.35
Exon sequences
Seq C1 exon
ACCTCGATTCCCCAAGAGAATTTACAGCTACAGAGGTTCAGTCAGAAACTGCCCTCCTTACCTGGAGACCTCCCCGAGCATCGGTCACTGGATACCTCCTGGTCTATGAATCTGTGGATGGTACAGTCAAG
Seq A exon
GTATCTATAAATCACACATTGCTGGGTAAAACATTTGATGTGCATAATCATCAAAGTAGCAAAGGATTCGCTGATACTGTTTCTTCACTCCAATACAACTAAACACCTAAAACAAACAAAAAACTAGTAGAGACTGGATATAGAACCAGACCTTGTGAGTCACAAACCACATGCTCACTAATCTTTCTTCCTTTAACCAGGCTCAAGCTATCTGAGCAACAGCCAAGATCAACGGCAGTGCTTTATAAGACTTAACATTTTAAGAGTTGGGCTCATGGCCATCTAATGTTTCATTGAGAAAGTACCAACAGCCTTTTCTGCATCTTTGCCACGTAGTGTCACCACCTGACTGACTGTGATCTATCTCAACACATCCTTGCAATGTCACTTGTTAAGACCAGCTACTTCTATTGCTAATATTACCTGTGTTCTCCCCTCCATGAACTTTACTGTATTTCTAAGCTAGGTTACTTATTCTCTTCATACTTAGCTATATGCAGCATCTCCCCTATATTTTTTATTAGATATTTTCTTCATTTACATTTCAAATGCTATCCCAAAAGTCCCCTATACCCTCCCCCCACCATGCTCCCCTACCCACTCACTCCCACTTCTTGGCCCTGGCGTTCCCCTGTACTGGGGCATATAGACAAGGGATCTCGCCTATATTCTGTGTAGCTACTTCACTTTTGCTCAGAAATACATGTCACTGCTATTGTAGTCTATAGCTCGGGAATTATGTTTCTTCTAGATCACATTAGTTTTGTTGCTGTGGTTTGGGTTAGTTTCCACTGTCCATGCTAGAAACTTCTTCCCAGTGTCTTTTAGTCCTGGCTTATCCTTTCATACTTATGCCAAGAACAAAGAATCTGATTAGAAGCTCAGCTGAACATAAGGGTTTGTTGACACTGGGGTTCAATGTAGAGATCAGCTGCTGTGTACCTGGAAATTTGTGGGGGAACCCCATAGTGCTTAGGCTCTTATTCTATGCAAGCTTTGCTTGCTCTTACACTTCCAGTGTAGTATCTTGACCTCCTCACCAGCTGATCCTGGTGGATTTGAATTCAGAGCCTCCACTGTAATGCAGATTGCTCTGTTCCTTGAGGGGACAAGGAGAATGGGGAATCAAGCTATTCCTCGTGCAAAGCTTCTAAACTGACTGAACCTCTCTTGAGTCACACACTACATTGCCTGCAAAGGCAGCTATGCTGTTATACACATGCATCAGAAACTCGCTGAGTGCTTCCTTGTATGTCAGCCAGCCTGGGGTAGTTCTGCCCACTCCAGGTGGTTCCTAGCACTTTCTGCTCTGGCACTGCAGGAATTGTTCCCTCTACTATACACCTTCTGCCCAGCAAGGTACATAGGAGCTACCTGTTTCTATCTCTTCCTCCCTCCCATTCACTTTTGTAGTTTCATTTCTTCTGGTCCACTCCTGTTTTATAAGATATGAAAAACACATAGAGAAATATTGGTATTTCTGATCTGCCATGTTTAACCACAAGTAGACACATTTCTAGCTTTTCTGGAGTTGAGACAGAACTCATAGTATGAACTGAAGCTGGTCCTTTATTGTCATGGTGTCAGTGCCCATACCTTTAAGATACGAGCATTGCACTTCTAGACCCCAAAAGTCTTCTGCAGGTTTGAGGTTCTAGGATTGTGCTTCCCTGGTTCATAAACCTCATTTCAGACTATCCAGACTTAGACAAATGAACACAGAAGCAGAGAGCTGATTGCCAGTCTAGGCTCAGGCAATTCAATAAACCTTGCTTTGTTCCCTGAGAGTTGATCCTTCCCCAGAAACCAGAGCTGATGGCACCACAAAGGTCACTAGGTCACTGGCATTGAGTGAACACACATAAATCATGGATAAGGTGGTGGGAGACTAGGAGGACGTGACACTGTCCTCTGCCATCAACAAATTATGGATTGGGAGCAAGTATCTTAGCTTCTGGGAAATTCAATTCCCACACTGTAAAAACATACATAACATACCCTCACTCCAGGAAGTCCCTAGGAAGGGAAATAACCTTCCAGTGGCCTCCACTCTGACCTGTTATTGACTAAACCCAATGAACTTGGTGAGTTCTAGAGATCAGAATTGTGTTTGCCGTGATGGAGGAGGAATTCCAGTCTCAAACACCAAGGCCATCTATTAATAAGAACTGGAGCCCAGTATGGATCTGAGGCAATGTGGATCTTGTAGAAACTGAGCCCAAACACTAGTCTAGAACCCAGGGACGAGCCATAAGCATAGTAGGGCTCACACATCTGTTCCTCCCGGGTCAGCTCAAGTCTTTATCCTGCCCCACGCACTAGGCTATTAACGTCATCTTGCAACTCAAGAGTTCCTCGACCTGAGTTTTAGTTTCCCTAGAGATACGTCTGCCTCCCCACCTTCTGAAAATTCAGTGAGTCTACACTGAGGCCCAGGTTATCAGACTGTTTAAATGTTGTGATAAAGGCTAAGCCCCCTTTCAGAACTGCTGACACAAATGGTCTCAGTGTCTCTTGCCCCTTGTGCAATTCACCTTACCATCAGCTTAAGCTTCTTAAGCCTCAACAGCTTAATCCTGTTCAAAACCTCTCAGACCTCCCAACTCCTTGTTGTTGATAAACGCCAAGCCAGTCAAGCCAAAGTGCGTAACATCCCATTAATGGTGTCCTGTAATCCCTCTTTGCCCATTTCTATTACCCACCCCCACCTAAAATTAAGTAGAACTAATGCAAAGCAGTGCTTCTGTGTTATTTAACCCCCCTGCCTTTCTCATCCCAGAGCTTTTACTTATGCAGCACTCTTGCTATCTCAGACATTCCAGAGGTACACTTGGAATCTGGCATGCAGTAGGTGCTGGGTGGGGTTTTATGTTAAGTGAATAAATGATTGCATTAGCCAGTGAGAGGAAGCATCTTTGCCGTGAGACTATCTGGGACCAAACTGATTCTTTTGCCTGCCCACAG
Seq C2 exon
GAAGTCATTGTGGGGCCTGACACCACCTCCTACAGCCTGGCAGACCTGAGCCCATCCACCCACTACTCAGCAAGGATCCAGGCATTGAGTGGGTCCCTGAGGAGCAAGCTGATCCAAACCATCTTCACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028364:ENSMUST00000030056:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(52.6=93.2)
A:
NA
C2:
PF0004116=fn3=PD(44.9=77.8)
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:
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