GgaINT1017298 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:560120-560477:-
Coord C1 exon
chr17:560393-560477
Coord A exon
chr17:560303-560392
Coord C2 exon
chr17:560120-560302
Length
90 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TCGGCCTCACACCCTGCCAGTGC
3' ss Score
3.78
Exon sequences
Seq C1 exon
GTGCTGATCACGGGGGAGGCGGGCAGCGGGGGCTCCGTGGCTGTGGATGACCTGATCCTGTCTCCGGGCTGTGTGCTGCAGCAGG
Seq A exon
GTGAGTTAGGGCGGGGGGCACGTGGTGGGGCCATGGAAGGGCAGTGCTAGGGCGCTGCCTGGAGCCAGGCTCGGCCTCACACCCTGCCAG
Seq C2 exon
TGCCACACTCCAGTCTGGGGCTTTTGGCATCAGACTCAGCTCCCGTGGCACTGCCGGGCCGGGCTCGTGCCAGCAACTGCGTGGCCGAGGAGTTCTCCTGTGATGACGGGGGCTGTGTCAGTGCCGAGCTGGTCTGCGACTTCGCCAAGGCGTGTGCTGATGGCTCCGATGAGAACCACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 A=NA C2=0.007
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(16.4=86.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=63.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACCTGATCCTGTCTCCGG
R:
CAGCTCGGCACTGACACAG
Band lengths:
170-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]