HsaINT0098626 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136858400-136858853:+
Coord C1 exon
chr9:136858400-136858546
Coord A exon
chr9:136858547-136858718
Coord C2 exon
chr9:136858719-136858853
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
CAGCCTCCTCTTGTTCCCAGGCC
3' ss Score
7.94
Exon sequences
Seq C1 exon
GTTCCTGTGATTTTGAGTCTGGCCTGTGTGGCTGGAGCCACCTGGCCTGGCCCGGCCTGGGCGGATACAGCTGGGACTGGGGCGGGGGAGCCACCCCCTCTCGTTACCCCCAGCCCCCTGTGGACCACACCCTGGGCACAGAGGCAG
Seq A exon
GTACGTGCCCACTGGAGCCAGGTGGGGAGGCACACACAGCCACCTGGCCTCCTGCTGCCCACCCACAGAGTACATGCCCCATCCAGAGGAGGCCCTGCTCACCGAGCCTCTGCTCGGGCCCTGAGGGCTGGCTCTGCCCATCAGCTGGGCATCAGCCTCCTCTTGTTCCCAG
Seq C2 exon
GCCACTTTGCCTTCTTTGAAACTGGCGTGCTGGGCCCCGGGGGCCGGGCCGCCTGGCTGCGCAGCGAGCCTCTGCCGGCCACCCCAGCCTCCTGCCTCCGCTTCTGGTACCACATGGGTTTTCCTGAGCACTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.3=94.0)
A:
NA
C2:
PF0062918=MAM=FE(27.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGAGTCTGGCCTGTGTGG
R:
CATGTGGTACCAGAAGCGGAG
Band lengths:
253-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development