MmuINT0102502 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141647866-141648485:-
Coord C1 exon
chr7:141648353-141648485
Coord A exon
chr7:141648116-141648352
Coord C2 exon
chr7:141647866-141648115
Length
237 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TGACCCCTACATTCCCACAGCTG
3' ss Score
8.22
Exon sequences
Seq C1 exon
AGATGCGTGTACCAGGCCTGCAACTACGAGGAGACCTTCCCTCACATCTGTTCTGCACTGGGGGCCTATGCCCATGCCTGCTCTGCCCGTGGCATCCTGCTCTGGGGCTGGAGGAACAGTGTGGACAACTGCA
Seq A exon
GTGAGTGCTGACTGTGGTGGGAGGGGTGAAGGGTCAGAAGAGGCAGGGTTGAGGGCTTAGGAGTGATGTGAGCCTAGACCACAACAAGGCTCCCATGGTCAGCTTGAGGGGTCTTAGGGGGCCTTAACCTCTGCTTAGCCATTCCTCTGCCTGCTAGTCACCACATCCCCAAGCCCCAGACCCTCCCCCCCCCCCACAGCTTCCTGTCCCGAGGATCTGACCCCTACATTCCCACAG
Seq C2 exon
CTGTGCCTTGCACCGGCAACCGCACGTTCAGCTATGATAGCCAGGCCTGTGATCGTACCTGCCTGTCTCTGTCGGACCGTGAGACGGAGTGTCACGTGAGTCCTGTGCCAGTGGATGGCTGCAACTGTCCTGAGGGCACCTACTTGAACCACAAGGCAGAATGTGTGCACAAGGCCCAGTGCCCCTGTCTGCTGGACGACTACAAGTTTGTCCAAGCTGATCAGTCAACCATGATCAACGGGGTCATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:16
Average complexity
IR
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:
PF087426=C8=FE(57.1=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=69.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTACCAGGCCTGCAACTAC
R:
TGTGCACACATTCTGCCTTGT
Band lengths:
298-535
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