MmuINT1032363 @ mm10
Intron Retention
Gene
ENSMUSG00000049897 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:MGI Symbol;Acc:MGI:2685557]
Coordinates
chr2:26943877-26945560:+
Coord C1 exon
chr2:26943877-26943992
Coord A exon
chr2:26943993-26945441
Coord C2 exon
chr2:26945442-26945560
Length
1449 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTCT
5' ss Score
2.57
3' ss Seq
CACCTTGATCCTGTCCGCAGACC
3' ss Score
10.71
Exon sequences
Seq C1 exon
GAACCTCAAGCCTTCCAACATCGTCCTTGTTAACAGTGGCTACTGTAAACTGCAGGATATGAGCTCCCAGGCACTGATGACCCACGAAGCTAAGTGGAATGTCCGAGCAGAAGAAG
Seq A exon
GTGTCTGGGGAAGACTGGGAATGAGTGGCAAAGGAGGTGGTGACTCTTGGTATCCAGAGGGCAGTGGTTACTTTTGGGGCTGGGCTTTTTAACTCGGAAGGTCTAGAGATCTCCAACCTAGGGAATAACACATTAGATGTGCCACTGTGGGAAGGTGCAGGGTCCAAAGGACTCCAACACATGTAAAAGAGATCCTTGGGGAACAAAGCAATGGTTGTGGTCCCCTTAAGATGTTAATTCTTGTGGGGGAAGAAAGACCCAAAAAGGACAGAAGCTACAAACAGGAGTACAGAAGTCCTCTGGGATGTAGGCACTGACTATGCATTTTAGACAGAAATAGTCCAGGAGATGGAATGATGTTAGAGTAAAAGGGGTGGAGTATATCAAGCCTATAACAGCTGTCACAACAGACAGAGCAACCTGGGAAGAGACTTCAGAGTCCTGTTGTGGCAATGGTTGTCCTTGGCACACAGAGGGTAGGTGGGCAAGTGGATCGATGGGTGGACAGGTGGTTGGGTTGATGAGTAAGTGGGTACAAGAAAGGGTTATATGGGGCTGGAGGGATGGCTCAGCACTGATTGCTCTTCCAGAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCCTCATATACATTAAATAAATCAATCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAAACTTTAAAGAAAAAAGAAAGGGTTATATGGAGGTATCGATGGGGTGTGTCCTTGGAGTCCGATCCTTCACTGTTTGGCTGGGGATTGGAGGTTTAGAAATGGAGTGACTACCTGAGTCCAGTTAGAACAGGGTAAGGGCACTACACTGGTGGCTCTTTCTGCATGGTTTAGGAATAAGGAAATTCAGCCAGAACTTTGCCCTAAGCTCCTAACATTTAGAGGGGATGAGCTGTTCAAAGAGGGCTACGCTTTGGCTTTTCTGGAACATGCCTCTCATCTCCTGCCTGTTGTCACACAGACAGACAGACACCTGCCCAGATGGACAAGCCTCCCTGGTGGAGACTAAGGTCTGTCAGGACAGTAGCCTCACTGCCTCAGCTTGCACTTTTCATCCCACCCAAAGAGGATGACTGAAAGACTTCTGTCTGAAGCCCTTGCCAAAGACCACTGAAACCGGGACAGTGTAGCTGAGTCCAGTGGGGCAAGGCTGTAGTCTCAGCACTGGGAGGTGGAGGCACATCTGGGATACAGGTGACCCCCTCTCAAAACAACCAAAAGAGGAGTGGTAATGCTGGGGGTCAGGCTGGCTCTGTCCTGTCCCTTGTCCCCAGAGAACACAGCACTCAGTGGTCCTTCCACCTTGATCCTGTCCGCAG
Seq C2 exon
ACCCCTGCCAGAAGTCCTGGATGGCTCCTGAAGCTCTCAAATTCTCCTTCTCCACCAAATCCGACATCTGGTCTCTGGGCTGCATCATTCTAGACATGGCCACTTGCTCCTTCCTGAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000049897:ENSMUST00000055406:7
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:
PF0006920=Pkinase=FE(14.7=100)
A:
NA
C2:
PF0006920=Pkinase=FE(14.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
CCTCAAGCCTTCCAACATCGT
R:
GTTCAGGAAGGAGCAAGTGGC
Band lengths:
232-1681
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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