MmuINT1023731 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141640337-141641588:-
Coord C1 exon
chr7:141641373-141641588
Coord A exon
chr7:141640420-141641372
Coord C2 exon
chr7:141640337-141640419
Length
953 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CCAAAACTTGTTCTCCACAGGTA
3' ss Score
8.66
Exon sequences
Seq C1 exon
AATACCCTCAAACCACCATGGCTGCCACACCTCCGACATCACCTTGGCCTCCTACATCCATACCGAAGTCAACACCCACAGAGCTCCCAGTGACACAGGCCACATCCAAGCCCACAGCATCTTCCCTCAGCTCATCCACGAAGACCACAGCTGAGTTAACAGAGAGTACCACAGTGACCTTGCTAACCTTAATGCCTGGGATGTCTACCAGCCAAG
Seq A exon
GTGAGTTAAGGCCAGTGGGAAGCCAGGGCACTCAAGCCACGATTGACTCCCACCCTCTGTATAGCACATCCAAATTAGGAGGAGGGCTGTATATTTAAGGAATGAGGGAAAAGGGGGACCAATGGGGCAGACAGAGAGCAGGAAGAGGGGGAAACATCCTGGCTCCCAGCCACATCTCAGGACATAGGACAGGCAGGTACAAGAGAAAAGATCTACGTCAAGGTAAGTGCACAGGAAGGAAGGGTAGAACTGCAGGAATATTTGCCAAAGAGAACTAAGTGCCTCAGCAAGTGGGCAACTCTCAGGCAATCAATCTACCATGGTTAGCAAGCAGAGAGAAAATGCAAGTCCAGGAACATAGCACAGCACATATAACGGACTGTGAGTTTAAACTAAACATTATTCACTGCCATGATCCAACGTGACATCAGCCCAACAGGAAAGTCACCATCCAGCCATGACAAGCCATGCAACTGAGACCACAGAGCTACCTCTCTCAGGAAAGACTACCCTGACCACGCCTCAATCAGGGCCAAGCAGTAGTTTCTCACCACCTAATACAAGTACTTGGACCCAAAACACAGCATCTCAAACCAATCCTCCACTCGTGACGGGGAGCACCCACTCTCTACCCACCATTTCTTTCCCCAATACAAAACACTCTACAAATGTTCCTTCAGAAACATCTACCCAGACAACAACCACTTTTCCAAGCACTCACAGCTCACTAGCATCTGTAAACCCAACCTTTTCTATATCAGAAGGGACACCGACATCTAAGATTCCCGTGACCCAGACGACTACACACAGGGTTCCATCACCTTCTATAACAAACCAATCTACTACCATGTTTCAAACCACTACTGTCCAGGAAGCAGAAATAACACAGACATTAGCGCCGAGTACTTATACAACCAACGACATAACTAAAACCCAAAACTTGTTCTCCACAG
Seq C2 exon
GTAAAACCTCAGCATCCTACACGACGCAGCATCAGTCCACATCGTTCCACCTCACTACAATATCCAAATGGCCCACCAACGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.967 A=NA C2=0.274
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCCTCAAACCACCATGGCT
R:
CGTTGGTGGGCCATTTGGATA
Band lengths:
295-1248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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