MmuINT0069494 @ mm10
Intron Retention
Gene
ENSMUSG00000036401 | Glt6d1
Description
glycosyltransferase 6 domain containing 1 [Source:MGI Symbol;Acc:MGI:1918353]
Coordinates
chr2:25793859-25795281:-
Coord C1 exon
chr2:25795144-25795281
Coord A exon
chr2:25794727-25795143
Coord C2 exon
chr2:25793859-25794726
Length
417 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAT
5' ss Score
7.25
3' ss Seq
CTTGTTCTGTGTGTTCCCAGTCT
3' ss Score
9.12
Exon sequences
Seq C1 exon
GAGACGCCTGGATGTCATCACGACCACAGACTGGCTGGCCCCCATCATATGGGAAGGCACCTTTGACAGAAAGGTCCTGGAGACATATTTCAGGAAGCAGAACATCACCGTGGGTTTGGCTGTGTTTGCTGTTGGCAG
Seq A exon
GTAGATGCTGTGAAGCGCTTCCCCTTTTATTTTGGGAAATTCGGTTCAGCATCCATTGATGTTTTGAGCCCAAAGAGTGTCATGTCCTCTTTTGTGACCACTACTTCTGAGCATACCAAATAGAAATTTGCCACGATAAGTCCCTGTACCAAGGCTGGGTCTATAAGGCCACTGGGAGTTCTTAATTAATGTCCTGCTCAGCTCTGACTCAGTAGTTCTAACGTGTCTTGGCCATTGATAGGCCTATAGACTTTCTATCCAGTTTGGTGGAACATCTCTCTACTGACCTCTTGGGTTTGTTTTGGGTTTTGTTTTGTTTTGTTTTGTTTTTTTAATATCAAGGACACTTCTCTTGACAGCACATTCTAGAGCACCTATTCCATTTAGAAATGTGTTTCTTGTTCTGTGTGTTCCCAG
Seq C2 exon
TCTCACTGACAAGTACCTGGACCCATTCTTGCAATCAGCCAGCAAGTTCTTCATGCCTGGCTATCGAGTGATCTTCTACATCATGGTGGATAAGTACCTGCAGCTACAAGAAATGGAGCACAACCCTCTGCAATCCTTTCAAGTACTCAAAATAGGCAAGGAGAGGTGGTGGAGCAACTTTGACCTCATGCGCATGAAAATCTTGTCTGAGCACATCCGGGATCACATCAGATATGAAGTGGATTTCCTCTTCAGCATGAACATCAACATGGTCTTCCAAAGTGAGTTTGGGGTAGAGACTCTGAGCACATCTGTGGCTCAGCTCCATCCTTGGTGGTATTTCCGAAAGAGGACGAATCTACCCTATGAGAGGAAACCTACATCAGTAGCCCACATTCCCTTTGGACTGGGGGACTTCTACTATGCTGGTGCCATTATAGGTGGAGTGCCCTTTCAGGTCTTGGACTTTGCTCAGCAATACTTGAAAGGTGTTTTCTTGGATACTGAAAATGGAGTTAACAGTACCTATGAAAAGTACCTCAACAAATATTTTTTCCTCAACAAACCTACCAAGCTTCTATCCCCAGAATACAGCTGGGACCCTACCTTCAACCTCCCTCGGCATGTGTGGTTTGTCAAGATTGCTCATCACCCCATAGACACCTTATGACGCACCAGTGCTGTTGGACTGCAGAGCAAACCACAGCAGGGCCTCAGAGACACAGACTGTCTTGTTAAAAACCCACATTTCAGAGGCCCAATAACATATAGTATTTCCAAAATCAATTGTTCTTTCTTGCAATTTTAAATTGTCCAACTTGACTGAATCTAGAATGAATAAAATGTGATACTTCATGTCCATTCACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036401:ENSMUST00000038010:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(15.8=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(75.9=98.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACATCACCGTGGGTTTGG
R:
GCCACAGATGTGCTCAGAGTC
Band lengths:
358-775
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