HsaINT0098636 @ hg38
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr9:136854539-136855110:+
Coord C1 exon
chr9:136854539-136854676
Coord A exon
chr9:136854677-136854936
Coord C2 exon
chr9:136854937-136855110
Length
260 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GCCAGCTCTTGGTTCCACAGCTG
3' ss Score
6.87
Exon sequences
Seq C1 exon
GCCGCCACATAGCCACCGACTTTGAGACAGGCCTGGGCCCATGGAACCGCTCGGAAGGCTGGTCCCGGAACCACCGCGCTGGTGGTCCTGAGCGCCCCTCCTGGCCACGCCGTGACCACAGCCGGAACAGTGCACAGG
Seq A exon
GTGAGGCCCACAGAGGACCCGGCCCAGGCCCTGCCCACGCAGCCACAGCCCAGTGGCCCTGGCCCACTCCCGTCCTTTCCCGCAGGCTCCTTCCTGGTCTCCGTGGCCGAGCCTGGCACCCCTGCTATACTCTCCAGCCCCGAATTCCAAGCCTCAGGCACCTCCAACTGCTCGGTGAGATGGGTGGGGCTCACAGGGCCTCCCTGCTCTCCGTGCTGGCTGCCCCGGTGCAGGCCCCCAGCCAGCTCTTGGTTCCACAG
Seq C2 exon
CTGGTCTTCTATCAGTACCTGAGTGGGTCTGAGGCTGGCTGCCTCCAGCTGTTCCTGCAGACTCTGGGGCCCGGCGCCCCCCGGGCCCCCGTCCTGCTGCGGAGGCGCCGAGGGGAGCTGGGGACCGCCTGGGTCCGAGACCGTGTTGACATCCAGAGCGCCTACCCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943:ENST00000485732:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.638 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(26.5=87.2)
A:
NA
C2:
PF0062918=MAM=FE(36.8=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Skipping 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:
CCACATAGCCACCGACTTTGA
R:
GTAGGCGCTCTGGATGTCAAC
Band lengths:
299-559
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