MmuINT0048116 @ mm9
Intron Retention
Gene
ENSMUSG00000001482 | Def8
Description
differentially expressed in FDCP 8 [Source:MGI Symbol;Acc:MGI:1346331]
Coordinates
chr8:125980571-125982331:+
Coord C1 exon
chr8:125980571-125980684
Coord A exon
chr8:125980685-125982250
Coord C2 exon
chr8:125982251-125982331
Length
1566 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CCTATTGTCTGAGTCCACAGAAA
3' ss Score
1.88
Exon sequences
Seq C1 exon
GTGTCCCGTTGCAGCATGCGCTACCTGGCACTGATGGTGTCTCGGCCAGTGCTCCGGCTCCGGGAGATTAACCCTTTGCTGTTTAACTACGTGGAAGAGCTGGTGGAGATCCGG
Seq A exon
GTGAGGCTGGGGGCCTGGTTAGGGTCCGGATGGATCAGTCTCCCTGTGGGAGGTGTACTTCTTTCTCTTAGGTATCTGGTGGGTCAACAGTGTTAAACCAGAGACAGTGTTAAGTTCCCTAATAATCTCATTGAAAAAGTGGGGTGATGCCTCATCCCTTGATGAGCATTAGGGAGCTAACATAGGAGGGTCGCCAGTTCAAGGTCAGCCTAAGCTTCATAGTCAGAGCTTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTATTAATTTTAATTCTTTCCATCAATCAACTATTTACCTACCTACCTACCTACCTAACTTACCTGCATGGTTGGGAATGTAACTCTGTTGTTAGGATGCTAGCTTGTTTGTTGTAGAGTATAGCTTGTTAGAATGCTAGCCTAGATGCAGGGAACATGGGTTCAACTCCCAGCAGTCTGTGAATCTGGCATGAGAACACACATAGCTCAGGCCGACCTTGAATTTGATAGCTAGCTGAGGTTAGTCTTAAATTCCTGATCTTCCTGCCTCTACCTCCTGAGTGTAAGATTAAAGCAAATATGTGCTATATAAAAGTATGCACCTATATAATAGTCTATTTTCTTTAGCTCAGTAGAACCAATGTGTTATTTTTATTATTATTTTGTTCTTTTGTTTTGTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTTCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAGATCTGCCTGCCTCTGCCTCCCTCGTGCTGTGACTAAAGGTGTGCACCACCACCTCTGGGCTGAACCAAAATATTATAATATACAGTCAACGTACAGGGTTGTCAAGATATTTTACTCCTTTTGTATTCTCTGTGAGTTTTGGATTGTAGAGTGTACTCTATACTTAGAGCCATTCAAGTGACGTCTGGGCACTTCAGCAGCTCCACATGACTGTTGGCCACTCACAGCGGAAGAGTCAGGGCCAATGTCAGATCAAGCTGTAGTTCAGGGACGAGCTGATGATGTCATGAACAAGGTGGAAAGGTCTTAGAGTCCATGTTTTAGTGGAAGAGTCTGAGGTGGTGCAGGGTGAGTGGTCAAGGCCAAGGCATTGGTGAGAGATATGGTATCGACCTAGGATTTTTGCCCACTGCATTGGATATGACTTAGTGCTGTCCTGAGGTGGTAGGATGGGCTCATTGCTTACTTGTGGAACTGGGCCAACAAGAATGGGAGATTTCAAGAGCCCAAGTTTAATGAACCTAAGTTCCTATGTAGATTCAATGCTGACGTGTACTTGAGGTTGGATAGACGACCAAATGTAGGACCATCCAGTGGAATTTGAGGGCACCTTCCCCAGTCCCTCCTGACCTTACTATCACCCCAGCATATAAGGAAGGGGAAGCCACCCTGTGAGTGTGGCCGCTATGAAGCCAGTACAGTACAGAAGCAGCCCGTTAGCCTTACAGAACGAGCTGCAGTGCCACCAGTGTGCCATGGCTGATATACCCACCTATTGTCTGAGTCCACAG
Seq C2 exon
AAACTGCGCCAGGACATCCTGCTCATGAAGCCATACTTCATCACCTGCAAGGAGGCCATGGAGGCGCGACTACTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001482-Def8:NM_054046:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139011=DUF4206=FE(18.0=100)
A:
NA
C2:
PF139011=DUF4206=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Cow
(bosTau6)
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:
TGTCCCGTTGCAGCATGC
R:
CAGCAGTAGTCGCGCCTC
Band lengths:
191-1757
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: