MmuINT0003803 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr8:113647645-113648512:+
Coord C1 exon
chr8:113647645-113647800
Coord A exon
chr8:113647801-113648378
Coord C2 exon
chr8:113648379-113648512
Length
578 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGA
5' ss Score
6.45
3' ss Seq
GTGTTTTTTCTGCTTCATAGACC
3' ss Score
9.74
Exon sequences
Seq C1 exon
CTCTGATATATGATCTGAAGGTTCCCCGTTGGGATTTCCAGACTGGAAGGCAGTTACGTACATCTCCTCTTTATGACCGGCTGGATGCTCAAGGAGCCAGATGGATGGAGAAACATGGATTTGAGAGGCCAAAGTACTTTGTTCCACCCAACAAGG
Seq A exon
GTAGGAATGTGTCTGTCTGTCTGTCTTCTTTTTTAAGAATCTCACATTTTAGCCTAGAACTTACTTTATATTTTAGGTCAGATTTGAATCCTGATCAGCCCTCTTATTTTGGCATCTCAATTGCTGGGATCATAGGCAGAAACCACCCTTGGCTGTGTGTGTGTTGTATGCATGTGTATATGTGCACCCTCGTATAGGCCAGAGATTTATGTTTTCTCTGTACTCCACCTTACTTTTTCAGACAGATTTTTTCACTGAATTTGGAGTTGACTGATTGGCTAAACTGCTGGCCAACAAGCCACAGAATCCTCTCACTTCTGGGATTAACCAGGGTTCACTGTTAATCCCAGCTTTATATCAGTGCTGGGAATCCAAACTCAAGTCCTCATGCTTGCATAGCAAGCTCTTCAGCTACTGAGACAGTTGCTTCTACCCTGCCTTAAAACTGGTATTTAGTGAGTGCCTTTGGCTAGAATGGGTTCCTGGAAGGAAAAGAGTCTGTAGGCCATAATAAAATATATGAAGACTTCTCAGTGTCAAAACTCTTTACTTTCCACCGTGTTTTTTCTGCTTCATAG
Seq C2 exon
ACCTTCTTGCATTAGAACAGAGCAAGACTTTCTACAAGCCAGATTGGTTTGATATTGTGGAGTCAGAAGTCAAATGCTGCAAGGAAGCTGTGTGTGTCATTGACATGTCCTCTTTCACAAAATTTGAAATAACT
VastDB Features
Vast-tools module Information
Secondary ID
-4930402E16Rik:NM_198308:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATGATCTGAAGGTTCCCCGT
R:
TTTCAAATTTTGTGAAAGAGGACATG
Band lengths:
278-856
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: