HsaINT0098620 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136857165-136857586:+
Coord C1 exon
chr9:136857165-136857298
Coord A exon
chr9:136857299-136857366
Coord C2 exon
chr9:136857367-136857586
Length
68 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGACACCCTCCACCCCCAGCTG
3' ss Score
8.15
Exon sequences
Seq C1 exon
GGACTCTGCGCCTAGCCATGAGACGGGAAGGGGAGGAGACACACCTGTGGTCGCGGTCAGGCACCCAGGGCAACCGCTGGCACGAGGCCTGGGCCACCCTTTCCCACCAGCCTGGCTCCCATGCCCAGTACCAG
Seq A exon
GTGAGGCCTGGCACCCGGGTGGGAGGACAGGGCAGGGCCCCTGGCCAGCTGACACCCTCCACCCCCAG
Seq C2 exon
CTGCTGTTCGAGGGCCTCCGGGACGGATACCACGGCACCATGGCGCTGGACGATGTGGCCGTGCGGCCGGGCCCCTGCTGGGCCCCTAATTACTGCTCCTTTGAGGACTCAGACTGCGGCTTCTCCCCTGGAGGCCAAGGTCTCTGGAGGCGGCAGGCCAATGCCTCGGGCCATGCTGCCTGGGGCCCCCCAACAGACCATACCACTGAGACAGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.341 A=NA C2=0.324
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(28.6=100)
A:
NA
C2:
PF0062918=MAM=PD(17.5=36.5),PF0062918=MAM=PU(26.8=56.8)
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:
CCTAGCCATGAGACGGGAAGG
R:
CCATGGTGCCGTGGTATCC
Band lengths:
167-235
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