MmuINT0071283 @ mm10
Intron Retention
Gene
ENSMUSG00000049897 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685557]
Coordinates
chr2:26952956-26953496:+
Coord C1 exon
chr2:26952956-26953035
Coord A exon
chr2:26953036-26953256
Coord C2 exon
chr2:26953257-26953496
Length
221 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTCTCGTTTCCTCCTTCCAGGAG
3' ss Score
11.43
Exon sequences
Seq C1 exon
AGGAGATCCTGCCAGAGATGGAGTCTGGAGGCATCAAAGACCTAGTCCAGGTGATCCGGGGGCGCTTTACCTCCAGCCTG
Seq A exon
GTAAGTGATGATGACACCTTGTATCGAGCCAGAACCCTTGCACTGCACTGACTCATAGCTCCACATGATGCCTTTCCCTGTGACTGGGCTGAATCCAATCCCAAATGGGAAGTGCAGCCAGACCACCTGAAAGATCCCATCAGTAGGATTTATGTCGTCAAAGTAATTGCTCCCGGATCTTGAGGCCACTGTAGCAAATGGTTCTCGTTTCCTCCTTCCAG
Seq C2 exon
GAGCTGATTTCTTACGCTGATGAGATACTCCAGGTACTGGAAGCAAATGCACAACCTGGCCTCCAGGAGGATCAGCTTGAGCCTCCTGCAGGGCAGGAAGCCCCACTGCAGGGAGAGCCCCTCTTCAGGCCCTGACATGCTGCCCTTCTGGTCCTGTGGTAAGAGAAAGTATCACTAGGTCCAGTATTAATTTCGTACCCCATGGTGACTAATAAAAGAAGCCCTAGGCTGTTTCTGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049897:ENSMUST00000055406:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.523
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
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:
CAGAGATGGAGTCTGGAGGCA
R:
TGCCAGAAACAGCCTAGGG
Band lengths:
308-529
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