MmuINT0094681 @ mm9
Intron Retention
Gene
ENSMUSG00000026941 | Mamdc4
Description
MAM domain containing 4 [Source:MGI Symbol;Acc:MGI:2685841]
Coordinates
chr2:25425677-25426836:-
Coord C1 exon
chr2:25426692-25426836
Coord A exon
chr2:25425800-25426691
Coord C2 exon
chr2:25425677-25425799
Length
892 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
CTGCTTACCTGGCCCCACAGTTA
3' ss Score
6.76
Exon sequences
Seq C1 exon
GAGCTAAGTCAGCCTGTGAGGCCACGGTGGACTGATAACTGAGAAGTCTCCTCTAGACTGCACAGCCTCACTTGAACTGGGACCTCCTCTAGCCTGGCCATGTGCCTGCCTAGCCACCTTCTTTCAACCTGGGTCCTGTTTATGG
Seq A exon
GTGAGTAAACCGTTGCCTGATGCTAGTTGGTGTGATGGGGACATGCAGGACAAGCCAACAGGGCTGCAGATTGCCCACCTAAATCTTATCTCCCTGTCCTAGAGGAGAGGCCACAGGATATCATAAGTGACCATCTCCCTGGCTCTCTGAGCCGTTGCCTGCTGCTCCCATTGTAGAACTTGTACAAGTCCCTTGGTCATCTATCCATCAGTGTGTCGTCCTTTTTTCTTTTTTTCCCCTTTTCTTTTTCTTTTCTGATTTTCCAAGGTAGGATTTCTCTGTGTAGTCCTCGATGTCCCGGAACTAGCTCTGTAGACCAGGCTGGACTCAAACTTAGAGAACTGCCTGCCTCTACCTCCCAAGTGCTGAGATTAAAGGCATGTGCCTGGCTCTATGTGTCTGCTTGGGGGGTGGGGGGTGGGGACGACCCTACTGGTTACCTTCTAGTTCCTGGTCATGTGGCTCCTTCTTACGACCCTTTTTCCTGTCCCTGGCATGCAGGGGCTAGGGAGGTGGGAAGGCATTCTGTTGACTTTCAGTGTAGATCCCCTGTGGCGGTTCTTGGTATATGTCAGGTTCCTCTCTATATAACCTTATAGGGCTGAACTCCAAAGTCAGTTGACAAGTATCCTGGCCTGTTCAGGTCTGAGGTTTCTCTGGATGTAGAATTCATACTGTTCAAAATAGCCAATCAGGGCTGGCAAGATGGCTCAAAAGGTAAAGGCATTTGTTGCAAAGCGTGATGGCATTTATTCAGTCCCTAGGTTCCACATGGTGGAAGGAAATAAAAGATTCCCACCTCAGCTGTCCTCTGACCTTAACGCCTGTTGCACTACACATATATGTACACAAATAGGTAATCACCTTGCCCTCTGCTTACCTGGCCCCACAG
Seq C2 exon
TTACCCTGCCAGCTGCACAGTCGCTAGGCAAGACCTGGCTCCCCAACCACTGCAGAAGCCCCATCAAAGCTGTATGCAACTTTGTGTGTGACTGTGGAGACTGTTCAGACGAAACTCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026941-Mamdc4:NM_001081199:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTAAGTCAGCCTGTGAGG
R:
ACACTGAGTTTCGTCTGAACAGT
Band lengths:
265-1157
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: