HsaINT0098621 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136857367-136857796:+
Coord C1 exon
chr9:136857367-136857586
Coord A exon
chr9:136857587-136857658
Coord C2 exon
chr9:136857659-136857796
Length
72 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
GCTGATGCTGGCACCTCCAGGGC
3' ss Score
5.12
Exon sequences
Seq C1 exon
CTGCTGTTCGAGGGCCTCCGGGACGGATACCACGGCACCATGGCGCTGGACGATGTGGCCGTGCGGCCGGGCCCCTGCTGGGCCCCTAATTACTGCTCCTTTGAGGACTCAGACTGCGGCTTCTCCCCTGGAGGCCAAGGTCTCTGGAGGCGGCAGGCCAATGCCTCGGGCCATGCTGCCTGGGGCCCCCCAACAGACCATACCACTGAGACAGCCCAAG
Seq A exon
GTATGGGGGCCTGGCAGGGGCAGGGATTGAGGGGCTGGCCAGGGGCTGGCAGGCTGATGCTGGCACCTCCAG
Seq C2 exon
GGCACTACATGGTGGTGGACACAAGCCCAGACGCACTACCCCGGGGCCAGACGGCCTCCCTGACCTCCAAGGAGCACAGGCCCCTGGCCCAGCCTGCTTGTCTGACCTTCTGGTACCACGGGAGCCTCCGCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.461
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(17.5=36.5),PF0062918=MAM=PU(26.8=56.8)
A:
NA
C2:
PF0062918=MAM=FE(29.3=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:
CTGCTGGGCCCCTAATTACTG
R:
GTGTCCACCACCATGTAGTGC
Band lengths:
168-240
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