MmuINT0071507 @ mm10
Intron Retention
Gene
ENSMUSG00000090685 | Gm9047
Description
predicted gene 9047 [Source:MGI Symbol;Acc:MGI:3644212]
Coordinates
chr6:29471437-29473465:+
Coord C1 exon
chr6:29471437-29471950
Coord A exon
chr6:29471951-29473297
Coord C2 exon
chr6:29473298-29473465
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
GCCCTCCAACAAAGCAAGAATTGGTCTCCTGCAAGATGTGCCGAATTGAGTCATTCTTCCGTAAGAATGGTGCCTTTGCACTCCTGGACCCTCGAGATCTGGCCCTCTGAGCTTGGGCCTGGCAGTCACTTAGGAACCAGAAGAAGAAATAAGAGGATTTCTGGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000090685:ENSMUST00000171317:1
Average complexity
IR
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
Rat
(rn6)
No conservation detected
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:
AAACAACCCCGTCTAAAGCCC
R:
GTTCCTAAGTGACTGCCAGGC
Band lengths:
353-1700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types