MmuINT0102339 @ mm9
Intron Retention
Gene
ENSMUSG00000025515 | Muc2
Description
mucin 2 [Source:MGI Symbol;Acc:MGI:1339364]
Coordinates
chr7:148877042-148878640:+
Coord C1 exon
chr7:148877042-148877303
Coord A exon
chr7:148877304-148878525
Coord C2 exon
chr7:148878526-148878640
Length
1222 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CCCCATAGTGGCTTCCACAGGGT
3' ss Score
4.46
Exon sequences
Seq C1 exon
AAGCCAGATCCCGAAACCACGTCTGCAGCACCTGGGGTGACTTCCACTACAAAACTTTTGACGGCGATGTCTACCGATTCCCTGGCCTCTGTGATTACAACTTTGCGTCTGACTGCCGAGACTCCTACAAGGAATTTGCTGTGCACCTGAAGCGGGGCTTGGGCGAGGCTGGGGGTCACTCCCAGATAGAGTCTATCCTGATCACCATTAAGGATGACACCATCTACCTCACCCACAAGCTGGCAGTGGTGAACGGGGCCAT
Seq A exon
GTGAGTGCGATTACTACTCTTCTCTCCTGTCCTAGCAGCTAGGGGGATGCTTTTGGCTCCTTAGAGCAAGTTGTATAATTTAGCTAGCCTCCGGGATACCATCTCTTCTGCTCTGGTACATGCCTAAGTTTGAGGTTTGAGCTATCCATAGATTCATTCAACAAACACTGGGTGGTTCCCTCTGTAGACCAGGGTCTTCTTATCTGGTGAGTCCCCTGTAGATTTTCCTTGGGGGGCATGTGGGATAGGCTGGTGGCTGCCAGAGCGCGTCCCCAAGGCTAAAGTTGCAGAAGCTCAGAAGGGAGAGGCTGCTTGCCCTGCCCTATTGTTCCCTGGCTTTGTCTCTGCAACAATGAGGTCCTCTTAAATGCATTCCCGTCCTGCAGGTTCACCTCCTGGGGATTTTCTCTTTTCCTGCTTCAGGGCTTTCTGGGTCCTGCAGGGGCTCTCCCAGTGTTGCCTTACCTTGCTTGGTCTGCCTGCGTTGTGCTGCCTTGTGTGGGTTGGGTATGGCAGAGGTCCCTAAGAAGAGAGGCTCAGGGGCTGTTGTGTGGCAGTTCCAGGAAAGCACAAGAGTGGGGTGGGGTCTTGGCAAAAGGACAGTCCCAGGGTGATGGGCTGGGCAGAGGTTGAGGGTCCCACATCTCATATGAGGAAATACCTCTTTTTTTTTGGAAAGATTTATTTCATATATGTGAGTATATTGAGAAGAGGCATCATCAGGTCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTTTTAGAAGAGCAGTCAGTGCTCTTAACGGCTAAGCCATCTCAGCCCTGAGGAATACCTCTGAAAAGAGGGCCTAGAAAGGATTGGGGGCTGAGTCCCCAAGGTATCTCAGACCTACTGCCATTAAGACTCTTGGGAAGGAGCCTGTCCTGGGCTCAGAGAGGGCACAGGAAGGGAAATAGGCTGAAGAGCCTGGCTCTGCCCCATGGAAACCCACTTAGCCCAGGACAAGGGCTTTCTAGTCTCTTCTTTGAGCTTGGCCAAGTAAGGTTGTGGCTTCAGATGAGAACAGACTGGCCATGTAAGGAGCCAGTCTGGGAGTGACTTCACCCAGATAATGCCCATGGCTTCAGCACCCTGTGGACAGCAGAACCCTCATGAGAACAAGTGGGTGGGTTCTGGGATGGTGAATTGGTGAGTGACCCCATAGTGGCTTCCACAG
Seq C2 exon
GGTCAGCACCCCACACTACAGCTCCGGGCTGCTCATTGAGAAGAACGATGCCTACACCAAGGTCTACTCTCGGGCCGGCCTCTCCCTCATGTGGAACCGGGAAGATGCACTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025515-Muc2:NM_023566:2
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:
PF0009420=VWD=PU(52.3=89.8)
A:
NA
C2:
PF0009420=VWD=FE(25.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGGGTGACTTCCACTACA
R:
CATGAGTGCATCTTCCCGGTT
Band lengths:
347-1569
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: