MmuINT0070146 @ mm9
Intron Retention
Gene
ENSMUSG00000052248 | Gm13476
Description
predicted gene 13476 [Source:MGI Symbol;Acc:MGI:3652108]
Coordinates
chr2:44968363-44969604:+
Coord C1 exon
chr2:44968363-44968513
Coord A exon
chr2:44968514-44968618
Coord C2 exon
chr2:44968619-44969604
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGA
5' ss Score
5.94
3' ss Seq
TTTCTTTTTCTTTTCTGTAGGGG
3' ss Score
11.32
Exon sequences
Seq C1 exon
TTTTGGCCAGAAATGGTGAGAAGAAAAAGCATGAAGAAGCCGCGAAGTGTGGGGGAGAAAAAGGTGGAGGCGAAGAAACAGCTCCCGGAGCAAACTGAACAAAACCTCGCCAAGAGTGTCTGGAGGCAGGACCGTTATTCCTGCCGAGCAG
Seq A exon
GTTAGAACTGATCTCTTTTCGGCCACTCCAGGAAACACAAACCTGGGGACGGACTGACGTGTTACGCCTCTTCTAATGACATTTTTTTCTTTTTCTTTTCTGTAG
Seq C2 exon
GGGAGAGAAGAGAGACCCTGAAACACGCGCCACCTATCTTTGTGGGGAGGGATAATTGAAGCGCCCTGAGCGTGAGCATCATGTGAAAACGTGATCGCCAAGTTTCTCTCTGGGAAAGGATCTGGGATAGATTATACCTTGAAGTCTCCGCAAACGCTTTAGTGGAAGAAATGAAATTCCACCTCCCTCCCTTCCTCTCTCCCTCCCTCCCTTCTCCACGCCCCCCCCCCCCCCCCCCCCCCCCGTCAAGCAAGCCTTTGGCATCATTATCCTCATCACTAAATCCTGCAGAGTACTGGGCGGAAAACGGTGCACACCATTCACAGAACTGGAGAACTCCAAGGGGCGAAAGTTAAAGGGAAAGCTCTCGGGTCTTCCATGCAGATCTCTTGTCTTATACAGATATCTCTGGTGACTAGGTTTGAGGTGCACGTCAAGTTGTATGGATACCTCAAGCACCGTTTTTGGAACTAAATTCTTGCCCTTTCTCTTATTACATTTTTTTTTTTAAAGATGCCAGAGCTAGGGGAGGGAAATGCTACTTGTACACTGCATCTTAGGATCTCAGTGTGCAGTGTATGTGTGTATGTGTGTGTGTGTGTGGGGGGGAGATTTTCTGGATTGGATCCCTATATTAAAAGTTTGGCATTTTAATAAAGGGTCTCTAGGTTAACATAGAGCTGTACTATGCTGGCCAATCTCTGGACCCCTCTACACCTCATGCAGACCACATTACAAAGTGAGGGGACAGGGGCAGGAGGAAGAAGGAGAAAGGTCAGAGGAACTTAGGACGAAAGAAAGAAGAGGGTGACACTAAACTGTGTGGGGTCTAAGTTTTGAAGTGCATATTTTTGATATTGCAATTAAACTAAAATTAAAAAGAAAAGACTCCACCTTTGCTCTGAAGGGATTGGTTATGCAAATATGGAAGGGATTTCCTGGAGAATACAGCTTTCTACTGTATGGTTAATTAAATAATCACTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052248-Gm13476:NM_001177394:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
NonCoding
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
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAAGCATGAAGAAGCCGCG
R:
TCCCAGAGAGAAACTTGGCGA
Band lengths:
243-348
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: