MmuINT0026485 @ mm9
Intron Retention
Gene
ENSMUSG00000079002 | C030006K11Rik
Description
RIKEN cDNA C030006K11 gene [Source:MGI Symbol;Acc:MGI:1925941]
Coordinates
chr15:76553601-76554275:-
Coord C1 exon
chr15:76554023-76554275
Coord A exon
chr15:76553650-76554022
Coord C2 exon
chr15:76553601-76553649
Length
373 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGG
5' ss Score
3.69
3' ss Seq
CCACTGTGTCCCTTCTGCAGCTT
3' ss Score
10.06
Exon sequences
Seq C1 exon
ACTGTGTGATCCGCTTCCGGTGTGGAAGAATGTGGCCGCCTAGTGGGGCAGTGCGTAACTTGGCTCTAGTCTTGGCGAGGTCGCAGAGAGCTCGGACCTGCAGTGGGGTCGAGCGTGTCTCCTACACACAGGGTCAAAGCCCGGAGCCCAGAACCCGCGAGTATTTCTACTATGTGGATCACCAAGGCCAGGTGTGCCTGGCGTGTGACAGAGGGAGGAGACCTGAGGGGACTGCGGAATCCATCGGCACCGG
Seq A exon
GTGGGGAGTAGTTCTAGAGGCGAGACCTGGGATAGGTGCTACGCGTGGCTTTGAACCTTTCAAAGCCCAGGCTGGAAGAGTTAATTCCGGGGCCTTCCGCTTTCACCGCATCGTAATCCCGCGCACACTAGCCTGTCCTAGCAGCAGTCCCAGAGCCGAGTGCTTGCTCGCGATTGCTAGGGACAAGCGGCTGTCAAACCTGCTGTAGAAAAAGGGGTGAGGGCTGCAACCCTGGAAACCTGTCTGTAGATGTGGGGAGAGTCCGCAGGGCCCTTCCACATGCCCCCCTGAACACATTAGACAGAAAAGCAAGGACAGCGAACACCACCGGCTTTCTTGCCAGGACTTACTGTCCACTGTGTCCCTTCTGCAG
Seq C2 exon
CTTTTCCTAGATGACTCCAAAATGAAGAACTTTATCACCTGCTTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079002-C030006K11Rik:NM_176828:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF149561=DUF4505=PU(13.7=46.3)
A:
NA
C2:
PF149561=DUF4505=FE(8.7=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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGTGTGATCCGCTTCCG
R:
CTTTGAAGCAGGTGATAAAGTTCT
Band lengths:
302-675
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: