MmuINT0071700 @ mm9
Intron Retention
Gene
ENSMUSG00000036246 | Gmip
Description
Gem-interacting protein [Source:MGI Symbol;Acc:MGI:1926066]
Coordinates
chr8:72335432-72337595:+
Coord C1 exon
chr8:72335432-72335539
Coord A exon
chr8:72335540-72337514
Coord C2 exon
chr8:72337515-72337595
Length
1975 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GACAATCCTCCACTCCACAGCCT
3' ss Score
6.7
Exon sequences
Seq C1 exon
AGCCAAATGCCACTCCAGTACATCTACACCTTGTTTCTGGAGCATGACCTCAGCCTGGGAGCCCTGGCCCTGGAGACAGTGGCCCAACAGAAGAGAGACTACTACCAG
Seq A exon
GTAAGCCCTCCCGTGTCGCCCGGGAGGTAGCCCCTCTGTAGTCTGACTTGGGAGGAAGCTGGAGCCCAGAGATGCTCAGGATCTTATCCAATGTTCCTTCACTGAGATTCAACCCGCATTCTGTGAGGCTGCAACACACACAGAATAGTGCTTTCATTTGAGAGGGCATCAGGGAGGATTGGTTTCAGGGAGAGCAGATAACTCAGAAGGTAAAAGATCTTATGGCCGGTCTTTGCGGTTTTGTGGGTTCTTCTTTTTCCCACCCTTTACTCCCAGCACCCTCACGCCCCACCCCCATTTGTTCCCCCTAACACAAGTTAGGAAGAAAGAAGGAGAGAGGGGAAAGAGAGATCCCTAAGTCTAATTTCTTTCCTTTTGTTTCTTCTTTGAGCACAACTCCTAACAAACCACAACCCCCCACCACAGAATGACCAATAGCCACAGACCCCACCTTTTGGGGTGCTAGCATCTAAATACCATCTGAAAAGTTTCCAGAATTCCAAACATCCGACAGCCACTGAAACTATCTGCAGCTGGCAAGACCATGCCTCTGCTTGAGCACGAGGCAAATCACAGTCAGCTGCTGGGGACAGCCTGAAGCAGCCCCGTCCTCTCACACCTGGGGTGAAAAGGAAAACACATTCTTGTAATGGTTCTGTGTTTTTTAAAGAAACCAGGACTCCAGAATTCTCACTCTAGGTGCTTGCTGCACGAGTCTGAAGACCCGAGTTCAATCCCTGAAACCCACATAAAGATAGAAGGAGAGCTGGGATGCCCTCTTTGGATGTATCTGAAGACAGCTACAGTGTACCTACATATAATAAATAAATCTTTAAAAAAGAAGAAGAAGAAGTAGAAGGAGAGCTCCAACTTCAAAATGCCATCCTCTGCCCTTCACATGCAAATCACGGCATGCTGCCTCTGTACACACATCGTATTAACAAATAAATAAATAGATCTCTTTAAAGGAAGGCTGGAAATAGCGCACAGTAGTAGAATACTTAGCTAGCAAGGCCAGGGATTCAAATCCCCAGTAACAAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAAAAGAAGAACCCATCAAGGTAGCTCACCCGGTGAAGGTGCTTGTCCCCAAGCTTGGTGACCTAAGTTTGATCCTTGGACCCCACATGGAGGAAGGCGATAACTGACTCCCACATGTCTTCTGTCCTCCACAAACATGCCACACATACACAAACACAAAAGAGAGAAATAAAAACAGGAAGCTAGTGAGACTCAGTGGTAAGAGCACACACTACTCTTGCAGAGGACCTGGGTTTGGGTCCTACCACCCATGACTGGCAGTCCACAACCACCTGTAACTCCAGCTCATGATGCTTCTATAGGTACCCACACTCATGTGCATAGACACAATTTAAGATAATAAAACATTTTTTTTTCTTTTTTCTTTTCTTTCTTTTTTTTCCAAGACAGGGTTTCTCTGCGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAAAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGTGCCACCACTGCCCAGCGATAATAAAAATTTTTAATTGAAAAAGTACACCAATAGAATCGTCAGGATGGGTGTTTCTCAAGAATAAAACCTCAGGATGTCTGGGTTCCTGAAGAAAAGATGGGATGATCGATCGATCACGTAACTTTCTGCTCATGTACTTGGACCTAGGGTAAAAAAGGCCTGGTTAGAAAAAAGAAAAAAACAAACCTCAACAGATTGAGACAAGGGTTCGGGTCTAAGGGGGTCAGGCAGGAAACAGCAGATGGGGCTCCTGAAGCTGCTTTCCCTCCCCGTCCATGACAATCCTCCACTCCACAG
Seq C2 exon
CCTCTGGCGGCCAAAAGGATGGAAATTGAGAAGTGGAGGAAGGAATTCAAGGAACAGTGGCTGAAGGAGCAGAAGCGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036246-Gmip:NM_198101:7
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAAATGCCACTCCAGTACA
R:
CATGCGCTTCTGCTCCTTCAG
Band lengths:
188-2163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: