MmuINT0102427 @ mm10
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:141812567-141813210:+
Coord C1 exon
chr7:141812567-141812750
Coord A exon
chr7:141812751-141813008
Coord C2 exon
chr7:141813009-141813210
Length
258 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGC
5' ss Score
8.99
3' ss Seq
GACCTTTGTCTCATCTGCAGGCA
3' ss Score
10.07
Exon sequences
Seq C1 exon
ATCATCTTCAACAACAAAGTAGTCAGTCCTGGCTTCCAGCAGAATGGCATTGTCACCTCCCGTGTGGGTATCAAGATGTATGTTACCATCCAAGAGATTGGTGTCCGGGTCATGTTTTCAGGTCTCATCTTCTCCGTCGAGGTGCCTTTCAACTTGTTTGCCAACAACACAGAGGGCCAGTGCG
Seq A exon
GTAAGCTCCACTCTGGATATTGTTCGGGTGTTGAAGGCAACCTCCCCGTGGGCCTAGAGAGATTTCAGACTGTGCACAATTGTGGTTCACATCTGATGTTCCCTGGCGGCTTCCCTGTACACCGGGAACCAAACTGACTTCTGGGAAAGCCAGATGCACAGGAAAGGAAGCAAGACAAGATGTCAGTTCTGCTCTTCAACAGGAGTCCACTGGGCACAGGTCTGCTGCCCAGCTGGCTGACCTTTGTCTCATCTGCAG
Seq C2 exon
GCACTTGCACCAATGACAAAAAGGATGAGTGCCGCCTGCCTGGGGGTTCCATAGCCTCCTCTTGTTCTGAGATGTCCCTCCACTGGAAGGTGCCCAACCAGCCTTCCTGCCAAGGGCCTCCACCAACTCCAACTTCAGTGGTACCCAGGCCTTCACCTACTCCGTGCCCACCATCGCCACTCTGTGAGCTCATCCTAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974:ENSMUST00000155534:35
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=0.147
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(38.1=100)
A:
NA
C2:
PF0009420=VWD=PD(10.0=23.5),PF087426=C8=PU(17.6=19.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGGCATTGTCACCTCCCG
R:
AGTAGGTGAAGGCCTGGGTAC
Band lengths:
304-562
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