Special

MmuINT0102429 @ mm9

Intron Retention

Gene
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148999613-149000449:+
Coord C1 exon
chr7:148999613-148999791
Coord A exon
chr7:148999792-149000358
Coord C2 exon
chr7:149000359-149000449
Length
567 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
GTGACTCTCTCTCCACGCAGCAT
3' ss Score
9.29
Exon sequences
Seq C1 exon
TACCTTCAAGCTCTGCCATGACGTCATCCCCCCGCTGCAGTTCTATCAAGGCTGCTTATTTGACTACTGCCACATGCTGGACCTGGAGGTTGTATGCTCAGGCCTAGAGCTCTATGCATCACTCTGTGCAGCCCAAGGCGTGTGCATTCCCTGGAGAAGCCAAACCAACAACACCTGCT
Seq A exon
GTGAGTGCCCAGCCAGCTCACCTTCCTGTCCTCTGTCGTGAGCATTTAGGGTCACTGGGCAGATAGCCTAGGTAAGGAGAAGGACAGCCAGACTCAGGACCAGTCTTCCCTGGAAGGAAAGACTCCAAGTTTTGGGCTTGTTGTGAGAAAGGGGGTTTGTCAAGTTAAGGTGTCTTTGGATTTAGGGCTTGAGGTGTTGTCTGTCTTAGACGAACAATAGCACTAAGGACCTAGACAAGTTGTTCTCAATCTGTGGATCAAGGGGTCACATATCAGATATCCTGTATATTAGATATTTACATTATGATTCAAAAGAGTAGCAAAAGTTTAGTTACGAAGTAGCAGAGGAATAATTTTATGGTTGCGGGTCACCACAACATGAGGAACTATGTTAAAGGCCATATCGTTAGGAAGGTTGAAGACCACTGACTTAGAGGAATTCGAGGTTAGCAATAGCCACTGAAGGCTTCTGAGCGGGTGTCAGTACTCAGCAATGGCTGGGGCTTAGAGGAGCCCAGAAGTGGGACCTTGAAATGGCTTCTCAGGCGTGACTCTCTCTCCACGCAG
Seq C2 exon
CATTCACGTGCCCTGATAACCAAGTATACCAGCCTTGTGGCCCATCCAACCCTCACTACTGCTACAGGGATGATAGCATCAGCCCAAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:38
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=FE(81.1=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(42.9=87.1)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
([1])
Zebrafish
(danRer10)
LOW PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCTTCAAGCTCTGCCATGAC
R:
AGGCTTGGGCTGATGCTATCA
Band lengths:
270-837
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