MmuINT0102405 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148983741-148984499:+
Coord C1 exon
chr7:148983741-148983835
Coord A exon
chr7:148983836-148984372
Coord C2 exon
chr7:148984373-148984499
Length
537 bp
Sequences
Splice sites
5' ss Seq
TCGGTAATG
5' ss Score
6.42
3' ss Seq
TCCAATGTCTCCACCCCCAGAAC
3' ss Score
8.98
Exon sequences
Seq C1 exon
AAAAGTATGCTCAGCACTGGTGTTCTCTGCTGACTAACGCCAGTGGTCCATTTTCCCAGTGCCACGCCACCGTGAACCCCAGCACCTTCTTCTCG
Seq A exon
GTAATGCTTACTCACTGCTTCTTCATCTAGCTAGGACTCCAACACTGCATTGTGTGATCCATATTTGGAAGAACAAAAGACACTGGAGGGAGGCAACTGACAGGCAACATGTGGCAGAAACATTCTCCAAGTCTGTACCTTTGGTTCTGCTCCTGACATCCATGGTCCTTATTTTCTTTTTGCATGTTCATTGAGTTTAGATCAAGCCTCAGGTCTATACTAGGAACAGGACTAAACATGAATCTTTTGAGATGCGTAGTCATAAGACAGTAAGGGAGACAGGGTGTTCTAGAGGTGGACCAGGTGGGTCACAGAGACAAAGGGTCAGTGTCTTCCCAGAATCTGTGTTCTAGAGGGAAGGTTGGATGCTTGTGAGATCTCAACATTAAAGTGAACTAAGGAGGAGTGGAGGATAAGGAAATGTCCTGAGGAAGATAAGGAAGTTAAGAATATGTTGTGATTGGGGGAGGGGCAGTCAGATACCAGGCTCCTGAATTCGAGGCTAGGTCCCTGATGTTCCAATGTCTCCACCCCCAG
Seq C2 exon
AACTGCATGTATGACACGTGCAACTGTGAGAAGAGCGAGGACTGCATGTGTGCAGCCCTGTCCTCCTATGTGCGTGCTTGTGCTGCCAAAGGCGTGCTGCTCAGTGACTGGAGGGATGGCATCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:16
Average complexity
IR-S
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=PU(41.3=96.9)
A:
NA
C2:
PF087426=C8=FE(56.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAGTATGCTCAGCACTGGTGT
R:
TGCAGATGCCATCCCTCCAG
Band lengths:
222-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: