HsaINT0098628 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136859005-136859317:+
Coord C1 exon
chr9:136859005-136859132
Coord A exon
chr9:136859133-136859208
Coord C2 exon
chr9:136859209-136859317
Length
76 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTCCTTTCCTTCTCCATCAGATC
3' ss Score
9.62
Exon sequences
Seq C1 exon
ACAAGGGGGAGCTGAAGGTACTGCTGCACAGTGCTCAGGGCCAGCTGGCTGTGTGGGGCGCAGGCGGGCATCGGCGGCACCAGTGGCTGGAGGCCCAGGTGGAGGTAGCCAGTGCCAAGGAGTTCCAG
Seq A exon
GTGAGGCTGGCTGTGGGCAAGGAGCCTCCTCCTCCTCCACCCAGGGCCCACACAAACTCCTTTCCTTCTCCATCAG
Seq C2 exon
ATCGTGTTTGAAGCCACTCTGGGCGGCCAGCCAGCCCTGGGGCCCATTGCCCTGGATGACGTGGAGTATCTGGCTGGGCAGCATTGCCAGCAGCCTGCCCCCAGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(25.3=100)
A:
NA
C2:
PF0062918=MAM=PD(18.1=81.1)
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:
CTGCTGCACAGTGCTCAGG
R:
ATACTCCACGTCATCCAGGGC
Band lengths:
177-253
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