HsaINT0098634 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136853992-136854336:+
Coord C1 exon
chr9:136853992-136854076
Coord A exon
chr9:136854077-136854210
Coord C2 exon
chr9:136854211-136854336
Length
134 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGG
5' ss Score
5.74
3' ss Seq
GTTAACCCTGCCCCACCCAGCCC
3' ss Score
3.73
Exon sequences
Seq C1 exon
GTGACCTTCTCTGCCACCCGAAATGCCACCCACAGGGGCGCTGTGGCTCTAGATGACCTAGAGTTCTGGGACTGTGGTCTGCCCA
Seq A exon
GTAAGGCACCGCCTCTTCCTGTTCCACCCCCGGGAGGGCCCCCACCTGCCCACTCCCCTGCTCAGACCCTGTCTGCCCCCGAGTGCTCTCCCACTCCTGGGGCCTCGGTGAAGGGTTAACCCTGCCCCACCCAG
Seq C2 exon
CCCCCCAGGCCAACTGTCCCCCGGGACACCACCACTGCCAGAACAAGGTCTGCGTGGAGCCCCAGCAGCTGTGCGACGGGGAAGACAACTGCGGGGACCTGTCTGATGAGAACCCACTCACCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:6
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=0.140
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(16.6=89.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACCTTCTCTGCCACCCG
R:
ACAGGTGAGTGGGTTCTCATCA
Band lengths:
210-344
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