HsaINT0098630 @ hg19
Intron Retention
Gene
ENSG00000177943 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:24083]
Coordinates
chr9:139754338-139755251:+
Coord C1 exon
chr9:139754338-139754516
Coord A exon
chr9:139754517-139755013
Coord C2 exon
chr9:139755014-139755251
Length
497 bp
Sequences
Splice sites
5' ss Seq
GCGGTAGGA
5' ss Score
6.86
3' ss Seq
GCTCCTCTTCCTCCTCCTAGGAT
3' ss Score
10.81
Exon sequences
Seq C1 exon
GGAACACAGCCGCACCCGGGTCTGTGCCAGCTGTGGTTGGCAGTGCCCTCCTATTGCTCATGCTCCTGGTGCTGCTGGGACTTGGGGGACGGCGCTGGCTGCAGAAGAAGGGGAGCTGCCCCTTCCAGAGCAACACAGAGGCCACAGCCCCTGGCTTTGACAACATCCTTTTCAATGCG
Seq A exon
GTAGGAGCCCCTGGGGATGGGTGGGCAGGAGCCTCTGTGCTCAGCTGTGACGCTGGAGGGCGGGCAGTGGCGGGACACAACCCCCCGGGGAGGAGCCCCCACCTGTGCAAGGCCCATCCTTGCCCTCCCTGCCCTGCCTCTCCCAGCCACCACTGTCAAAGCTCCTCCTCCTTGGCCGGGCGCGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGATTGAGGTGGGCGGATCACCTGAGGTCAGGAGTTTGAGACCAGCCTGCCCAACATGGTGAAACCCCGTCTCAACTAAAACTAGAAAAAATTAGCTGGGTATGGTGGCAGGAACCTGTAATCCCAACTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCAGGGAGGCAGGGGTTGCAGTGAGCGAAGATCGTGCCATTGCACTCCATCCTGGTTGACAAGAGCGAAACTCCGTCTCAGGAAAGAAAGAAAAAAAAAGCTCCTCTTCCTCCTCCTAG
Seq C2 exon
GATGGTGTCACCCTCCCGGCATCTGTCACCAGTGATCCGTAGACCACCCCAGACAAGGCCCCGCTTCCTCACGTGACATCCAGCACTTGGTCAGACCCTAGCCAGGGACCGGACACCTGCCCCGCCCAGGCTGGGACAGGCTGCAGGTCTCAGGATATGCTGAGGCCTGGGCGTTCCCTGCCCTGTGCTGACTCTGTTGCTCTGTGAATAAACACCCTGGCCCATGAGGGCAGCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000177943-MAMDC4:NM_206920:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.120 A=NA C2=0.302
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCCCTCCTATTGCTCATGCTC
R:
GGGCCAGGGTGTTTATTCACA
Band lengths:
358-855
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)