GgaINT1017304 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:558502-558968:-
Coord C1 exon
chr17:558852-558968
Coord A exon
chr17:558637-558851
Coord C2 exon
chr17:558502-558636
Length
215 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CGGTTGTTCCCGATGATAAGGAT
3' ss Score
1.76
Exon sequences
Seq C1 exon
AGCTGTCCTGCAACTTCGAGGCGGATCTGTGCGGTTGGTACCCGGACCGGGGCAGCGACTTCCAGTGGGTCCGCAGCACAGGACAGGGGCAGGGCTCCGACCACACCACCGGATCGG
Seq A exon
GTAAGGGCCTGGCTCCTCTCATGCCACCCCGGGCAGCTGGAGCGGCCCCGCTGCCCCAGTCCCCAGGGTGGAATGTGCCCTGTGTGTCGTGAGCAGCCCTGGGAGCGAGGAGGGTGAGCTCAGCTGAGCAGCACAGGGGCACGCAGTCCCTGCGTTGGGGACATGGCAGTGCGAGAAGGATGGGTGAGTGCAGCTCGGTTGTTCCCGATGATAAG
Seq C2 exon
GATACTTCTTGGCCGTGGACCCCTCAGCACCATGGAGCCGTGGGCAACATGCACAGCTCATCACCTACAGACAGGAGCCAGCTGCTGCCCCGCAGTGCCTCGCCTTCTGGTACCGCCTGGCTGGCCCGCAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(23.2=90.0)
A:
NA
C2:
PF0062918=MAM=FE(29.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCCTGCAACTTCGAGGC
R:
AGCCAGGCGGTACCAGAAG
Band lengths:
237-452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]