MmuINT0071278 @ mm10
Intron Retention
Gene
ENSMUSG00000049897 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685557]
Coordinates
chr2:26950025-26950682:+
Coord C1 exon
chr2:26950025-26950165
Coord A exon
chr2:26950166-26950553
Coord C2 exon
chr2:26950554-26950682
Length
388 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GTGTTTATGGCTGCCTACAGGAC
3' ss Score
8.36
Exon sequences
Seq C1 exon
CACTGGCAAAGGACCCAGAAGCTGAGATCCCAAGGAGCAGTTTGATCATCTCCTTCCTGATGGATACCTTGCGGAGCCATCCTAACTCTGAAAGGCTTGTTAATGTGGTCTACAACGTGCTTGCCATTATTTCCAGCCAAG
Seq A exon
GTGTGTTGGCCTTTTGCTCTGTTTCTGCTCTAAAAAGCCAGGGACAGAATAGAGGCCTTGGGAGATGGGCAGGAGAGGGGCCCATGCCCAAGATGGATAGCCACGCTGTTCTCTGTTCTGAGTGGCAGCCATGGGCACTGCTTGGAAACTCGGGACAGTGGCCAAGAATTGAATGGCTGGCTAGCTGGTCAAGTCAAGGCTAGGCACTGGGCCACTTAGACTTCTTCCCCACCCACACTGAGCCCACTTGGGCGAGAGGGGTATTAGGCTTAGGCATTAAAGTAGACCAGCCAGGCAGACTAGGTATTGCATCAGCCCACTGAGAAAAGGTAGTGCTGGGGAAGGCTTCTTGGAAACTTCCCCTCCAAGTGTTTATGGCTGCCTACAG
Seq C2 exon
GACAGATCTCAGAAGAGCTGGAAGAGGAGGGGTTGTTTCAGCTTGCCCAAGAGAACCTGGAGCACTTCCAAGAGGACAGGGACATCTGCCTCTCTATCCTGAGCCTGCTCTGGTCCCTCCTGGTAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049897:ENSMUST00000055406:13
Average complexity
IR
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
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:
GCAAAGGACCCAGAAGCTGAG
R:
CATCTACCAGGAGGGACCAGA
Band lengths:
265-653
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