GgaINT1017303 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:558852-559273:-
Coord C1 exon
chr17:559168-559273
Coord A exon
chr17:558969-559167
Coord C2 exon
chr17:558852-558968
Length
199 bp
Sequences
Splice sites
5' ss Seq
CGGGTGTGT
5' ss Score
5.31
3' ss Seq
GGCCACCTCTCTCTGGGCAGAGC
3' ss Score
7.5
Exon sequences
Seq C1 exon
GTCGAGCTGCTGGGGATGGCGGAGCTGCAGGACCCCGAGGCCATCGCCATCGCCAACGTGACGTTCGTGCAGTGCAACCCTGGCGTGGAGCCCCCCGAGGCTGCGG
Seq A exon
GTGTGTGGGGGCACATGGGTGTCTTGAGCTGCAGGGCTACCCGGTGCCCTCAGTGTCCCCAGCCCTGCAGGTGGGCTCTGGGCCGGGCTGAGCACACCTCCTGTCCCCGACACTCACTGCTGCCTGGAGGAGGTGGCGGGGAGATGCGCTGGGTGCCTTATCTGCACCGCCCTCACCACGGCCACCTCTCTCTGGGCAG
Seq C2 exon
AGCTGTCCTGCAACTTCGAGGCGGATCTGTGCGGTTGGTACCCGGACCGGGGCAGCGACTTCCAGTGGGTCCGCAGCACAGGACAGGGGCAGGGCTCCGACCACACCACCGGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(16.8=72.2)
A:
NA
C2:
PF0062918=MAM=PU(23.2=90.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TCGAGCTGCTGGGGATGG
R:
GATCCGGTGGTGTGGTCGG
Band lengths:
220-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]