MmuINT0162924 @ mm9
Intron Retention
Gene
ENSMUSG00000028364 | Tnc
Description
tenascin C [Source:MGI Symbol;Acc:MGI:101922]
Coordinates
chr4:63626618-63627696:-
Coord C1 exon
chr4:63627545-63627696
Coord A exon
chr4:63626715-63627544
Coord C2 exon
chr4:63626618-63626714
Length
830 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
AAGTATCCATGTTGTTGTAGGTT
3' ss Score
6.52
Exon sequences
Seq C1 exon
TTGGACTCCTGTACCCATTCCCCAGGGACTGCTCTCAAGCAATGTTGAATGGTGATACTACCTCTGGCCTCTACACCATCTATATAAATGGTGACAAGACTCAAGCACTGGAAGTCTACTGTGATATGACCTCTGATGGAGGTGGATGGATT
Seq A exon
GTGAGTACAACAGTGGGTTTTAGAGTTCTGGGACATGGGCTTGGATGAAGGGAAGTGTGTACTCTCAAATACATGTGCATAAGACTTTGCAAGGTAATCCTTGTCACATGGAAGCCCTTCACAATTATCTATTTAAATAAAAAATAGAAGGCAAGGACTGGATATGTAGTTCAGTTAGTAGAGCGCTTGCTTAGAATGAAGAAGGTTTTGAGTTCAAACCCCAGCACTGCAGAAAAACAAGAACAAAGTTGCTAACTGTCTACTTGCACTCAGAAGGTAGAGGCAGAAGGATCAGGAATTCTAGGTCATCCTAAAATATCAGTTTTGAGCCATTCTGGACTAACAGAATGAGGTGGCAGGAGGAACTCTGCTATGAATGGCAGTGACAATCAAAACTACTAGTTACTATAACCAGTGTTGGCTAAGTAGTTACTCTTTACCAGACTTCTGATAAGAATGTCAGGGCTTATTTCAATCCCATGACCATATTGACTGTATAGGATTTTCTTTTATCAATAAAACGTGTTTGTAGGTCACACCCCCAACCTCTCCTCCACTTTCAGCTTCAGTGTGATGCTTCATGAAGACTGAGAGGCTAAGATCCAACGATGTCACCAGCACTAAGAAGCGTTGTCCATTCCTAGTTTTCTGAACACCTAGACGTAGGGAGGGGAGGGACATTATGTGCCCAAAGTCACAAGGCAAATAACTAAGCAATGGAGAAAGCTGGATATGGATGACTGTTCTTCCCTCAGTCTGGCATGCCTCCTTCCAAAAAGACATCTTCTCTTCTCTTCCTTTCTTTTACTTAAGTATCCATGTTGTTGTAG
Seq C2 exon
GTTTTCCTGAGACGCAAAAATGGACGTGAGGACTTCTATCGCAACTGGAAGGCCTATGCTGCTGGGTTTGGAGACCGCAGAGAAGAATTTTGGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028364-Tnc:NM_011607:21
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=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACTCCTGTACCCATTCCC
R:
AGCCAAAATTCTTCTCTGCGGT
Band lengths:
246-1076
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: