MmuINT0071291 @ mm10
Intron Retention
Gene
ENSMUSG00000049897 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685557]
Coordinates
chr2:26945764-26946727:+
Coord C1 exon
chr2:26945764-26945927
Coord A exon
chr2:26945928-26946596
Coord C2 exon
chr2:26946597-26946727
Length
669 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
ATTCTCTGCCCCTTTGCCAGGGA
3' ss Score
6.51
Exon sequences
Seq C1 exon
GACACAGAAGCCATGCAACTGCGGAAGGCCATCCGCCATCATCCAGGCAGCCTGAAGCCCATCCTGAAAACCATGGAGGAGAAGCAAATCCCTGGTACAGATGTCTACTATTTGCTTCTGCCCTTCATGTTGCATATCAACCCCTCCGATCGACTGGCAATCAA
Seq A exon
GTAAGCTTAGAGCTGGGTCTTCTTTTAACCTATCTGTGTACCTTTCAGCATCTTCCCACCTTAACATACAGAGCTGTCCCGATTTGCCCACATGTATCCCTCAACTACATGGCAGCCACTAATCTTAAATATATGGTGGGTTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTTTAGATTAGGTCTACGTCCTAGGCTAGCTGTGAATCTAAAGTGACCCTCCTGCCTCAGCTTCCCGACTGCTGGAATTACAGGTGTATTTATATGGCTTGAATACATGTCTCTTCAAAAAAGATGCAGGCAGCCCTACTTTCCCACTGGGTGCAGGGACTTATCACTTTCAGAAGACCAGAAAAAGTTTCCATTCTAATAATGTCAATCAGAAAACCTGTTCAAATGTTTTTAAGGAAGACGGGGTATGAAGGCAAGAAGTGCTGGACCCAGGACCATCTTTGGGGGCCCTGCCATGGAGGGAGTCCTGTGATTTCAGAGTAGAGTAGGTCCTTAGAAGTAGAACTACAAAGATAGTTACTAGGTACACATGGAACACCGAGAGCCCACCCACCCACCAGGAAGCCTGTGTTCAGTGTCTGCTGTTATGGGTCACCCACAGCTCATGGCAGAGGGATGGTCCTATGGGAAGCCACTGGTATTCTCTGCCCCTTTGCCAG
Seq C2 exon
GGATGTGATGCAAGTCACCTTCATGAGCAACTCCTTCAAAAGCTCCTCTGTTGCGCTGAATATGCAGCGGCAGAAGGTCCCCATCTTCATCACTGACGTGCTGCTTGAAGGCAACATGGCCAACATCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049897:ENSMUST00000055406:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(20.3=100)
A:
NA
C2:
PF0006920=Pkinase=PD(3.0=17.8)
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:
GACACAGAAGCCATGCAACTG
R:
CTAAGATGTTGGCCATGTTGC
Band lengths:
295-964
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