MmuINT0158426 @ mm9
Intron Retention
Gene
ENSMUSG00000029386 | Tctn2
Description
tectonic family member 2 [Source:MGI Symbol;Acc:MGI:1915228]
Coordinates
chr5:125048758-125049251:+
Coord C1 exon
chr5:125048758-125048965
Coord A exon
chr5:125048966-125049143
Coord C2 exon
chr5:125049144-125049251
Length
178 bp
Sequences
Splice sites
5' ss Seq
CGGGTGTGT
5' ss Score
5.31
3' ss Seq
CACATCCTTCCTTCCCTCAGTTT
3' ss Score
9.06
Exon sequences
Seq C1 exon
TCATTGATTGGTGGTTGCCATGGCTGCAGGCATTTAGCTTGGCAATATGGCGTCGGCTGGTCGGCGAAGGCCGCCACTTTTTCTCTTCCAGGCTATTCTGGGTTTCTGAGGCAGGCCGGCCCGGGTATGGGCTCTCTGTCACCGCTCAGCCTCCTGTGGGGACTCCTCCTGCTGCAGGGCGTCCTGAGGCCGCTGCGCGGGGACCCGG
Seq A exon
GTGTGTATGGTGAGGGTATGGCCAGCATGGCCCAGGCTGAGGGAATCTGGCTCTTAAAGGGCCAGACCTGGGGTTCCTAGGATCCCGGAAGCCAGGCCACATAAAAAACCAGCACACGCACCCCAGGTACAGGTTCTGTACCCGTTAACCCCTCCCCGCACATCCTTCCTTCCCTCAG
Seq C2 exon
TTTTCATCCCACCTTTCATCCGGATGTCCAGCCCTGAGGTCCGAGCGACCCTGGTCGGAGGCAGCGAGGATGTCGCTGTGTCTCTGAGTCTGCTGCAGGTCGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029386-Tctn2:NM_026486:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCGCCACTTTTTCTCTTC
R:
GACCTGCAGCAGACTCAGAGA
Band lengths:
242-420
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: