MmuINT0071507 @ mm9
Intron Retention
Gene
ENSMUSG00000090685 | Gm9047
Description
predicted gene 9047 [Source:MGI Symbol;Acc:MGI:3644212]
Coordinates
chr6:29421437-29423429:+
Coord C1 exon
chr6:29421437-29421950
Coord A exon
chr6:29421951-29423297
Coord C2 exon
chr6:29423298-29423429
Length
1347 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TATCTGACATCTTTTCCCAGGCC
3' ss Score
7.9
Exon sequences
Seq C1 exon
TAAGTGACCATCCCAGGGCAGCCACCCACTGTCCACTTGCTATGCCCACTCAGCAATAGCTACCCTGATACTGCTCATTCCTTTGCCACCATGTCGAGGCAGCTCAACATGGACACCCTGCGGCAAAACTTCTGGAAGGAGGAATATCTCAAAGAGATGATGTTGCGCTACGAATGGCAGCGCAAATATGGGACTCTGGTGAAGGCCAAGCAGAAGGCTAAGGCTGCATCCCGTCTGCCCCGAAAACTGCCCACCCTGTTGCCTCAGGCCTCAGTCGCACCACCACCACCAGCCTCCAAAACAACCCCGTCTAAAGCCCCCAGCCCTGCCCCAGAGCCTCTTTTTCTGTCAGATATGTACCCCGTTGCGCCTAACACCAAAGCCCTGCTGTATGAAGGCATCTCCCACGACTTGCAGGGGCGCTACCAGTATCTCAACACCCGAAAACTGGATCTGCCAGAGACGCGTTACCTGTTCCCCATCACCACCAACTTCACATATGGCTGGCAGCTGG
Seq A exon
GTGAGCCCCGACCTCCCATAAATGAGTCCCCTCACAAACACCGAGCGCCTGCCATGTGCTGGAGAGAACATTCAGGGGAAAGGCCAGATTGTGGGCAAGGAGATAGATGTAATAGAAGCTCTGTGAAATGAAGGAACGGTGGGGGGTGGGGAAGCGTGTGCTTCAGCCGGATCATTAGCACAGGCCTATCGCAGGCGTTTAAGGCTGAGGGCTAAACGACATGGGGAAGGGTTCTGTCCTAATTTGAGGGGAAGCTAGTGAGGATTTAAACAAGTGAGTGATGCTGGATTTGAGACACTGAGGCTCCTGGGCAGGTGAATTAGGCATCTGTGTTATCTTGGCAAGACGTGATTAGGATTAGAACTGAAATCAAGGATGTTTTAGACACCACTCCATGGGGCTTCTTGCCGGTTTAAATAAGACAGGGAGGGCAAGCAAGGGTGACCCACAGATTCTGTTGTAGTTGCTCGTGAGATTAGAAGAGGACAGGGCAGGTGGTATTTGAAGACAGGTCCGTGGTGGCCATAGTAGGTTCAGGATGCCACCGAGGCAGCTGTGTGTGGAAGCATGGCCTTCCTGAGTTAGGTCAGAGCTAAGAATGGAATTTTACCTGAAGGGAGTAGGGAGGTGGGCCAGCATGTAGAGGTGGCATCGGCAGGAAGGCGAGCACCTGTTTTTGTTTTTTTTTTTTTTTTCCTGAGAGACTGAAGGTAGGTCATCGGCCAGGACAGAAAGCAGGAGAGCCCTGGTGGCTTTCCAAAAGTGTAGGGAAAATACCAAGGCTGTATGTGCCATTGGGTTGATGAGGGCTCTGGAGTATCCATTCACTCACTAGCCTACGGGTCAGGAGGTCCTAGGGAGTGTGTCCCACTGCCTGAGCATGTGCAGAAAAGATGGGTGGGGGGAGCAACACAGGGACCTCGTTTTCCTCTGAGATGAAAGTAAGGGTCCGGCCTTCCCTACAGAAGAAAGAGGAAGCCCCAGAAGTGAGGTGGAGGTAGAAGGAAAGTCCCATGTCTCCACAGTTTGTCCCTGTGACAAACGTAGCTGAAAGGCACTCTCTGACCTGTTGGCCCTGGGGAGAGAGTGCAGTGGTCCATCATCTAGATGCCCAAAAAAGACCCCAGTGGAGCATCTTAGAACCCGATGATCATGGCAGACAGCTGAGTCCAGTTATCCAGCACCCAAACGGATTTTCCTGTAGTCCACACTTCTCAGAAGTCCTTTTTATTTGTTTATGCAGGGCAGGTACAACATGGGTAGAGTCTCAGGGCTATGTGGGAAACTCCTGTGCTCTGAGACCTCCTTCTCACAAACCCATTTCTAGTATCTGACATCTTTTCCCAG
Seq C2 exon
GCCCTCCAACAAAGCAAGAATTGGTCTCCTGCAAGATGTGCCGAATTGAGTCATTCTTCCGTAAGAATGGTGCCTTTGCACTCCTGGACCCTCGAGATCTGGCCCTCTGAGCTTGGGCCTGGCAGTCACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000090685-Gm9047:NM_001145360:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.225 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF148861=FAM183=PU(70.5=38.7)
A:
NA
C2:
PF148861=FAM183=PD(28.2=59.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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:
CACCACCAGCCTCCAAAACAA
R:
AAGCTCAGAGGGCCAGATCTC
Band lengths:
345-1692
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: