MmuINT0006225 @ mm9
Intron Retention
Gene
ENSMUSG00000078776 | 9530053A07Rik
Description
RIKEN cDNA 9530053A07 gene [Source:MGI Symbol;Acc:MGI:2442118]
Coordinates
chr7:28937737-28938884:+
Coord C1 exon
chr7:28937737-28938074
Coord A exon
chr7:28938075-28938310
Coord C2 exon
chr7:28938311-28938884
Length
236 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGGACTCCCTCTCTCCCCAGGTG
3' ss Score
13.07
Exon sequences
Seq C1 exon
ACCCATGCCAAGGTGTTACCTGTCGGTCACAGGAAACATGCACAGAGAAAGATGGCAAGGGTGTATGCAGAGCCAACTATGAGTCCAAGTGCTGGGTGTGGGGAGACCCTCACTACCATTCCTTTGATGGCCTGAACACTAATTTCCACGGGACCTGCAGTTACCTGATGGCAGGAACTGGCTGCCCTGGCACTGGTGCTGAGGGGTTGACCCCCTTCAGTGTCATTACCAAGCATGAGAGCCAGAGCGACCCTAAGGTGTCCTACGTGAGGAAGGTCACCGTGAAAACCTACAACACCAGCATCACCATCCACGAGAAAAAGACTGGCAGAGTTCAG
Seq A exon
GTATGATTAGTGGGACCTAAGACTCTAAGAAGGCCAGCGTTGGGAGAGACCTTGATCAATCAAGAGATCTAAAATAAACCCCAATGGCAGATCTCTTTCCCAAGAGCCTGAAATAGTGGGTTAGAATGTCAGCCAGGAAAAGCCCTTGGCCAGGGTAATGGAGGAAGCGGGACAACAGAGGATACAGCTCCACCCGCACTGCTCCCTGACCCCTGCTGGACTCCCTCTCTCCCCAG
Seq C2 exon
GTGAATGGAGTTTTCATGGCCTTGCCTGTGTACTTGGCTGGTGGGCGGATTTCAGTGATTAATGGAGGCTCAAAGGCTGTGCTGGAGACTAACTTTGGGCTTCAGGTCACCTACAACTGGAAGTGGAGGGTACACGTCACACTGCCCAGCAGCTACTATGGTGCAGTGTGTGGGCTCTGTGGGAACATGGACAAAAACCCCCAAAATGACCAAGTCTTCCCTAATGGCACAATGGCACCCTCAATACCTACCTGGGGTGGCAGCTGGCAAGTTCCAGGGTGGGACCCTCTTTGTTGGAATGAATGTCAGGGGTCCTGTCCCACATGCCCAGAGGACAGAGTGGAGGAGTATAGGGGTCCTGGCTTCTGTGGACCTCTGGACCACGACACAGTGGGTCCCTTTACCAGCTGCCATGCCCATGTGCCTCCTGAAAGCTTCTTTGAGGGCTGTGTGCTGGACGTCTGCCTGGGTGGTCAAGTCAAAGACATACTATGCCAGGCACTGGCTGACTATGCTGCTGCCTGTCAAGCTGCTGGCATCAAAATCGAGGACTGGAGGACTCAGGCCGGTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078776-9530053A07Rik:NM_001164655:11
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=0.021
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(51.2=72.6)
A:
NA
C2:
PF0009420=VWD=PD(47.5=39.6),PF087426=C8=WD(100=40.1)
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:
GACCTGCAGTTACCTGATGGC
R:
TGTAGGTGACCTGAAGCCCAA
Band lengths:
302-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: