HsaINT0098619 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136856907-136857298:+
Coord C1 exon
chr9:136856907-136857041
Coord A exon
chr9:136857042-136857164
Coord C2 exon
chr9:136857165-136857298
Length
123 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
GACTGGTCCCCTCCCTGCAGGGA
3' ss Score
10.5
Exon sequences
Seq C1 exon
GCCACTTTGTGCTCCTGGACCCCACAGACCCCCTGGCCTGGGGCCACAGTGCCCACCTGCTCTCCAGGCCCCAGGTGCCAGCAGCACCCACGGAGTGTCTCAGCTTCTGGTACCACCTCCATGGGCCCCAGATTG
Seq A exon
GTGAGTGGACCTGGAAACAGGGCAGAGCCTGTGGGGAGGCCCCCGGGGGTTCAGAGTCCCCCGCTCTGACACCCATCAAGGCACAGGAGAGAGGTCAGTTATGGACTGGTCCCCTCCCTGCAG
Seq C2 exon
GGACTCTGCGCCTAGCCATGAGACGGGAAGGGGAGGAGACACACCTGTGGTCGCGGTCAGGCACCCAGGGCAACCGCTGGCACGAGGCCTGGGCCACCCTTTCCCACCAGCCTGGCTCCCATGCCCAGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.073 A=NA C2=0.341
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(29.2=100)
A:
NA
C2:
PF0062918=MAM=FE(28.6=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:
CACTTTGTGCTCCTGGACCC
R:
AGGCTGGTGGGAAAGGGTG
Band lengths:
246-369
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