MmuINT0005450 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:20310421-20311326:-
Coord C1 exon
chr9:20311172-20311326
Coord A exon
chr9:20310510-20311171
Coord C2 exon
chr9:20310421-20310509
Length
662 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
CTGTCTTTCTTTCCTATCAGGCC
3' ss Score
11.82
Exon sequences
Seq C1 exon
GACTCCATATAACCCTGTATTAAGAGGAATGGAGATTGCCTCTGTCCACTTAGATTCATAAGCTGTCCCGAAGTGATCTTGGCATCAGGGAAGGGAGTGTTCAGGCACATTTCACCATCAGCATCACGGGATGGCAGCCATTGATTTGTCCCATG
Seq A exon
GTAAGTCCTTGTTGAAGCTCTATTTCAGACTGTTTTAGGTCTCTCCTGCACAGTAAAGTCCAGCGGGCAGGACTTTAGTAGTTTTGTATGTTCATTTACAATGAGCTGAAGTGGGCTGTATAGGAGTGGTTTGTGATTTAGGGTCCCAGGATGTATGCTTGCGAAGAGATGTGTAATTGTCATGAGTTCTGTCACCAGGGGCAATATAGAGTCATATGTTTCTTTCTACATTTTATTTTATTTTATTTATTATTATTGTGTGTATTTGTATGAATGCGGGTAAATGCAGAGTACTTTTTGGGGGGTCAGTTCTCTCTTTCCATGTGAGATCCTGGGATCAAACTCTGGGCATCAAGTGTGAGCATTAACAGGTGAGCCATCTCACTAGCCCCAGAATCAATGTTTTTTATACCGTAAGTTCCTTTATCTATAAAGTGAGAACGCTCTCTTTCTCAGTTGGCAGCACAGTTCCTAGCTTGCCCTCTGGCTCCAGGGGAGGCGTAAGTGCTGTGGCATTTCTTGGTAGGAATATGTATTTATGTGGTTTGATGAGTGTATAGATGGCAGGGGAATGTCACACTGTTGTGGAGTGACTTCATGGCATGTGAATGTGGGGATTACAAGCAGCTCTGGGATTTTATGCTGTCTTTCTTTCCTATCAG
Seq C2 exon
GCCTTCTTTCTAGAGAGCCTATCTACGTCTACGAAGCAAACATAGAGGTAGACGGGACGGTGACTGACAACCAGGCAAATTGTTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
-5730601F06Rik:NM_001082485:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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:
ACTCCATATAACCCTGTATTAAGAGG
R:
AACAATTTGCCTGGTTGTCAGT
Band lengths:
238-900
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: