MmuINT0006228 @ mm9
Intron Retention
Gene
ENSMUSG00000078776 | 9530053A07Rik
Description
RIKEN cDNA 9530053A07 gene [Source:MGI Symbol;Acc:MGI:2442118]
Coordinates
chr7:28940163-28942114:+
Coord C1 exon
chr7:28940163-28940706
Coord A exon
chr7:28940707-28941545
Coord C2 exon
chr7:28941546-28942114
Length
839 bp
Sequences
Splice sites
5' ss Seq
GTCGTGAGT
5' ss Score
7.82
3' ss Seq
TCCTTGTTCTCTCTCCACAGCCC
3' ss Score
12.8
Exon sequences
Seq C1 exon
GTGGATGGAGAGATGGTCAAGCTGCCGTTCCAGCTGCAATCACGGCTCCTTGTTCACCTAAGTGGCATGGGCTTGGTGGTACACACCTCCTGGGGGCTCTCCCTGACTTTTGATGGAAACAGTTTCATGCGCCTGCGCGTGCCCGCAGCCTATGCTGGCACCCTCTGTGGCCTGTGCGGCAACTACAACAAGAATCCCAACGATGACCTGACTGCAGTGGGCGGGAAACCTGAGGGCTGGAAAGTGGGCGGATTTCCAGACTGTGACCAATGCCAGCTTAGGACTTGCCCAAAACCCTGTACACCTGAGGAACGGAAACGTTTTGGTGGCCCCAATGCCTGCGGCATTATCACGGCCCCCGAAGGCCCACTAGCGCCCTGCCACAGCTTTGTGCCACCCACGCAGTACTTCGAGGCTTGCTTGCTGGACACCTGTCAGGTTCAGGGACATTCAGGAGGCCTCTGTCCTGCTATAGCCACCTATGTGGCAGCATGTCAGGATGCCAGGGTCCGACTTAGAGAATGGAGAAAGCCAGACTTCTGTC
Seq A exon
GTGAGTACTGACCCATGTAGCTCCATAAGACAAGGCATCCCCTCCACCTCCTGACAGAGATACACCTTGGCACTACTACGGAAAAACTCCAGTGGAGTACAGAAGGACCCAGGGCACACCCAAAGTCAGAAACCCTGCGTGTAGACCACTCTGGAGGTTCATTTTCCTAACGGACTTGGATAGTGACAGTTACTCAGCAAGGAACCCCTGTCAGAGGCCACATCTCAAGCCCCTGGACCATCTCCCACACTGGAATAGAGATAGCCACACAGAGGTGGTCAGATAGCCCAGTGGTGTCTGGGGAGACACTACATGGCCTGCCACATGCAGGTCAGACATCAGACACTCCGCTGGGATCAGCACCTGTCCCCAGCAGATCCAAGCTGACTTCTGACTCAGAAGTGGTGGGACAGCTCCTCCAGGCAGATCTGCTGGGTCAGGTCCAACCTGTCAGTGTCACCCAATCACATACACACTGCCACAGTGGCATCCTGAAACAGAGCACGTCAGAGAGGCCCGAGGGTGCTCCAGTCATGCCTGCACTGTCCTCAGTCAGGATGACTGGCCTCCCACACACCCACATCAGTAAAGCCCTGGTCGGTTCTAGACTGTCCTGCTCATAGGTGTGTGGCCATATCCCCAGACAGACACTTGCTTCAGAAGTACTCTTCAGGGTGATACACTCTCCTCAGGGAGACCATACCAGTGCCCCTGTCATATGTTCTAGGTCCAGTCACATGCCAAGTCAGAGGCAGCAGGCCTCAGTCAGGCTCTCACCCCCAAGCCCTCCTGATCCCACCATCGCCTCTGCCTGACTCCTCCTTGTTCTCTCTCCACAG
Seq C2 exon
CCCTCCAGTGCCCTGCCCACAGCCACTACCAGCTCTGTGGTGACTCCTGCCCTGTGAGTTGCCCGAGCCTCTCCGCCCCTGTGGGCTGTGAAACCATCTGCCGTGAGGGCTGTGTCTGTGATGCTGGCTTCGTGCTCAGTGGTGACACCTGTGTCCCTGTGGGCCAGTGTGGCTGCCTCCACCAAGGGCGCTACTATGCGTTAGGTGCCACCTTCTACCCCGGCTATGAGTGTGAGTGGTTCTGTGAGTGCGGGCCTGATGACCAGGTCACCTGCAGGATAGAGACCTGTGGGATCCATGAGGAATGCCGGATAGAGGATGGCATCCGGTCCTGCCATCCCAAAAGCTCTAAACTAATGCTGGTCCTTCATGGTACCCATTATGCTACGCCTGATGGCTTGGTCTATGACCTTTATGGCTCCTGCTCCTACATCTTGGCCCAAGTTTGTTTTCCGAAGCATGGAGAGGAGGCGTTCTCCATTGTGCTCGAGAAGGACTTAGCTGGAAACCCCCAGCGGGTGGTGGTGACCGTGGCAGGCCAGGTCGTGGTGCTGGCGAAAGGGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078776-9530053A07Rik:NM_001164655:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(47.8=41.2),PF087426=C8=WD(100=41.2)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=28.4),PF127142=TILa=WD(100=29.5),PF0009420=VWD=PU(46.6=35.8)
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:
GCCAGGGTCCGACTTAGAGAA
R:
CCTCATGGATCCCACAGGTCT
Band lengths:
346-1185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: