MmuINT0062641 @ mm9
Intron Retention
Gene
ENSMUSG00000027086 | Fastkd1
Description
FAST kinase domains 1 [Source:MGI Symbol;Acc:MGI:2444596]
Coordinates
chr2:69540420-69542441:-
Coord C1 exon
chr2:69542310-69542441
Coord A exon
chr2:69540907-69542309
Coord C2 exon
chr2:69540420-69540906
Length
1403 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTCTCTCCTTTACATAATAGTCG
3' ss Score
5.14
Exon sequences
Seq C1 exon
GATTGTTTCTGTTCTGTACAAACATTTGGATAACTATAAATCGATAGAGCTATTGAAGATAATACAAGCATTGACTTTTCTACATTTTCAAAGTAAGGAGCTTTTTATGAAACTCAGAGAATTACTTCTCAG
Seq A exon
GTAAGATTTTAAGTATTTAAAAAAATAAAGTTAGTATTTTATTTATTAAGATAGTATTTTATTTCAAAATCCATCCATGTAGCTAGAGTTTTCTGGATAAAACTGAATGACTTATTCCTGAATCTTTAAGGTCTAGGTTATACCTAGCATGCTGTATTAGCATATATGAACCCTGAGTGTGATCCCCAGTATACAACTAAACAACCATATAATGGTGATATTAATAAGAAAGCAGTTTTTCATGCAATTTTCCATTTACACTAATAACAGAAAATTACCCTATTTTCTCTGGATATGTAACACTGTGTTATAATTTGGAAGTTACACAGTTTTTCATTGATTCAATTGTGTTAAAATGAAGTATTGCTAACTTTAATCTCTAAGCTTACTAATAATGAATGACAATACCTTTACCAATGCACTGTGACTAGCATGGAATATTATGATCATTTTATTTGACAAGCAATCAGTGGAGTGTGTGTGTGTGTGTGTGTTTGTGTGTATGTGTTTGGTCTTTCATTGTTCATTTTAGATAGGATTTCAGAACTCCAAAACAACAAATAATAAAATCATAGCAACTCAGTTTTGAATTCAATATGATTGAATCTTTTCTTCTACACTTCCAAGCGTAGAGGTGCCTTAAAGTGGCCAGTTCTTAATTTGTTGTTTAAGTTACTGTTCTCGAACTGGGGGCACACGCCTTTAATCCCAGCACTCAGGAGGTAGAGGCAGGTGGATCTCTGTGAGTTCGAGGCCAGCCTGGTCTATGAAGCAAGTTCTAGGACAGCCAGGCCTACATAAAGAAACCCTGTCTCAAAAAAACAAAAACAAAACAAAAAAAAAAAGAACTACTGCTCTCATGCTGAGATAGTTACTGTGCAGATTTAGAGAAGTAAGATTAGAGAGGTCCGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGCCAGTGTGTCTGTCTGCCAATGACAAGGCAGTATGTCCTGGGCACATAAATAAGAAGGGAATTGATTTGGTATTATTGAGGCTCCCCCATGCCAGAGACTACCCAAGGTCCCAGCAGCTCCCAAGCGTTACGGAGACACAGGGCTCAACACTCCCTAGCATCAGCACTGGGCACCATTCTTCCCATTGATGGTGAGGTGGGGTTTTTTTTTTTTTTTTTCATAAAAAAGTTTGGAGCATAGTTATGTCACCTGAGTTTTTCCTTAGTGACCCCTTGAGATCTATCCCCTGTGAATAAGTCATAAATGAAGTGGCTTTCTAAAGTTACCTCACCTGTTAAGAACAATTGTGTAACACTACTTTAATTCATGTATTTTGGGTGTTTTTTGTTGCTGGTGTGTTAGTTATACTTTTCCCCTTCTCTCTCCTTTACATAATAG
Seq C2 exon
TCGTTTGGAAGCTAGTGTCATACCCAGTGAGATTTCTGTTCTGGTCTCTGCTCTGTCCATGCTTCCACATCCGCACCTCAGTGAAACAGCGGTCTCCCGGATTGAAGCAGTTCTACCACAGTGTGACTTCAGGGAACTGAATGACTTGGTAGTATATCTCATGCGCTGGATTCAGAGTGATCTCGTCTGCCTGGCTAGTACTACTGGAAAGCAACTGGACCTCCTTCAAAAACTAGATCAACTGGGCCGTCACCGGCTGCAACAGAGCACCAACTTGGATCTTCTGTGGGAGGAGCTCAAGTCTTTGAAGGGAGAATGGCTTCACGAATCCTTAGTTGAAGAATCCATCGCTGCTTTACTGCGTTTCATGGATGAAATAGATTACAGCAATATTGCCAAGGTCGCGTCTTTTCTTTCCAGAACTAACTACCTCAACACTCTGCTGCTGGATAGGATCGCTTCAGTGGCCATTCAGCAGGTTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027086-Fastkd1:NM_177244:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGCTTTTTATGAAACTCAGAGA
R:
AAGACTTGAGCTCCTCCCACA
Band lengths:
342-1745
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: