MmuINT0102520 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141634440-141636377:-
Coord C1 exon
chr7:141636283-141636377
Coord A exon
chr7:141634543-141636282
Coord C2 exon
chr7:141634440-141634542
Length
1740 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TCTTGGGCCTCCATCCTCAGGGA
3' ss Score
8.39
Exon sequences
Seq C1 exon
CCGCAGCACTTCTCCCACTGGAAGCTCCTCACCTTCTACCCCAGTATCATCCTCCAATCCAGACTCCTCGGTCTCCTCGCCACCCTCGCATCCTG
Seq A exon
GTAAGTAATGTGACAGGCTGGGTCCTTGGTCCCTAGCCTCCTTATGTCCCATTTGTTTACTCCCCAGGATTTTACACAGCAGCTCTGCTGTGTAGTTCTTCCCTCCCATGGTCCCACAGTGCCTGTGCAGGCCCTAGAGCTTCTTTTTGGTGTTTTTGGGCCTAAGTGCAAGCTTCTTTCTCTTCACCTCTCAGGAGTACTACTCTGTTCACCTAGTCTAGCTGAATTAGAGACTTAAAAGTCCGTTTGACTTTCCTGGCCCTCTACTGCTTCCTGTAAGGGATTCACTTGTGCCCCATATGCCTGCTGTGGTCTTGACTTACCTTGGCCCTAACATCTCTAAGCAGCCCTCCACACCTGTTGAAAAGCTTGCATCTGAGGTCTAGCTGGGTCTTTGAGTGTAGGCACTCAAACTACCTCAGTACTAAAGGAAATGATCGCCTACTCCAGGCATACAGTTCATCTCAGATGATGTGTGCAAGAGGCAGGGTGGGGGTGGGGGTGGGGGTGAATGGGTGAGGTGGAGGCCAGGCCAGGCATGGAAGTTAGTATGGACACTTGTTGCCCATGGTTTCCATAAGCTCTCCTACCCAACTCTAACCAGGGCTCCCTACAGGACAGTTATCCCCTGCACAGTGACATGAATTCAACATGTACTCTGAGGACACCCTCAAAGCACATAACTTGGGACCAGGCTCCCCACACAAGCTCTAGGCCTCCCTCATACAGGAAGTCTTCACAAAGCCAGCAATCAGTTCTGTTTTTGGTTACGTCTTGTTACTTTAAGTTCAGGCTGTTTACTGAGAAAATAGTCTCAAGAAGTAAGGAGAGAAAGTAGTGTTACAGGATAGGAAGAAATCACCAAACCTTCCACCAAAAACCCCTTAGAGAAGCAGGCCAGGAATAAACTTGGACACAGGAGAGAAGATACATGGGCACATCTGTCACCCACATATCCTTTTTTTTTTTTTGTTTTATTTTGATTTTGTAATTGTTTCTCAAGACAGGGTTTCTGTCCTGGAACTTGCTTTGTAGACTAGGCTGCCCTTGAACTCACAAGCAACTCACCTACCTCTGCCTCCCAGGGGATAAAAGCTGTATGCACCATGCCTGGCTCACAAACCATTTTTAACTTAATGTATGTGTTGTGCATACAACTTGCATGTGAGTTCTAGAGATGAAAAGGTCATTAGGTTTGGTGGCAAGCCCCTTTACCTGTTGACCCATCTTACTCAACCCAAGTTCCACGTGGACGGTATCAACCCAGGCTCTTCCTGACTCCTGGTCTTCCTGCATGTCTCCTGAGGGCGGGCTGATTATAGGTGTGTACCATCTCACCCTGACCACACTGCAGAGCCTAAGGTCAACAGTACAGCCTGCTTGCTGAAGCATCACTACCATTTGCTGTCCAGTGTCGTGGCCTCTGAAACCTTTCTAGAGGCCCAGAGGAAGTGGCCTTCTCTGCTGTGCCTCTTACCCCAGGTGGCACAATTCTGCTTCTCCGATACTCTATGTTCTCTTGTGAGGGATATGGACAGTCTCCTGTGATACCCTCCTTGGCTCTTAGTATGTCCTCCATCCAACAGGCCTAAGACACCTTTACTGGGGACTATAGGGGGCTGACTCAGTGACAGAGCCTTTAAGAAGGCTTTGAATACTGGATGGATAAGGAGCTACATAGGACAAGTCAGATGGGGACTAGGAAGTGACTGAGACCTGTTCTTGGGCCTCCATCCTCAG
Seq C2 exon
GGACCTGCAGCTTACAGGAGGAAGAGCACCAGATTACTTACCAGGGCTGTGTGGCCAATGTGACTCTAACTCGTTGCCAGGGTTTCTGCGCCTCCTCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.881 A=NA C2=0.069
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
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:
CCGCAGCACTTCTCCCACT
R:
CTGACAGAGGAGGCGCAGAAA
Band lengths:
198-1938
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