MmuINT0045444 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:32812849-32813425:+
Coord C1 exon
chr17:32812849-32812931
Coord A exon
chr17:32812932-32813247
Coord C2 exon
chr17:32813248-32813425
Length
316 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTACCCCATCCTCCCACAGGAA
3' ss Score
11.14
Exon sequences
Seq C1 exon
GTCTATGACCCCTTCCGTTTTGATCCAGAGAACATCCAGGCTAGATCACCTCTGTCATTTATTCCCTTCTCAGCGGGGCCAAG
Seq A exon
GTGAGGCCAGCAAGCTCAAGGTCGTGAAGTAGGGTCTGGGCCTGGTAGTGAGGAAAGCTGAATTGAGATGGTAGAGGTTTCATCAAGGTTTGGAGAATCTATTTGGGAAGTTCCAAGAGCGGCCAGGGATGGCAATAGCTGTGGGGCTCCCTCCCGTGGGTTGTATTGTGGCCTAAACTCGAATGAAGTATTAGTGGTGTGCTAGGTGTATTAGCATCTCTCAACGTGACCGATACTGGGTCAGGTTGGGTCTGAGAATGCCTGTCTGGGTCCCTGCAAAGGGCACAGCCACAGTCCCTACCCCATCCTCCCACAG
Seq C2 exon
GAACTGCATTGGACAGACTTTCGCTATGAGCGAGATGAAGGTGGCGCTGGCGCTGACTCTGCTGCGCTTCCGCATCCTGCCAGATGACAAGGAGCCACGCCGGAAGCCAGAGCTGATCCTGCGCGCAGAGGGCGGGCTGTGGCTGCGGGTGGAGCCGCTGAGCACCCAAGCACAATAA
VastDB Features
Vast-tools module Information
Secondary ID
-Cyp4f40:NM_001101588:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCCTTCCGTTTTGATCCA
R:
TATTGTGCTTGGGTGCTCAGC
Band lengths:
254-570
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: