GgaINT1017321 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:561670-562169:-
Coord C1 exon
chr17:562044-562169
Coord A exon
chr17:561817-562043
Coord C2 exon
chr17:561670-561816
Length
227 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGC
5' ss Score
3.48
3' ss Seq
CTGCTCTCACTGCCCCACAGAGT
3' ss Score
8.62
Exon sequences
Seq C1 exon
CTGGGCAGCAGAGCTGCGGGGCAGAGGAGAGCAGCTGCAGCAGAGGATCCTGCCTGGCCCTGGGCCGCTTCTGTGATGGCACCGATGACTGCGGGGATGGCTCTGATGAAGACGCAGAACAGTGCC
Seq A exon
GTGAGCATCTCCAGCCCTGGGGCCGGGGGAAGCAGTTGGGCTGAGGGTCTGAGCCCATGGGACCACGGGGTGGCATGTGGATGGCATGAGTTATCCCAGCTCTATCCCAGAGCTTTGCAGCTGCAGGGACAAAACCACCCAGCGGGTTTTGCACAGCCTATTGTGCAGCCCCTTGACTGGGGATGGCTGGCCTCTGTCCGTGTGTCACTGCTCTCACTGCCCCACAG
Seq C2 exon
AGTTCTTCACCTTCTGCTCCTTCGAGGAAGATCTTTGCAGCTGGGAAGTGGAGGCTGGGCAGCCGACATGGGAGAGGAACACAAGCGTGGGCCTGGGGACCACCTCTGGTGTTCCCACCCGGGATCACAGCACCAACAGTGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:7
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=0.320
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=90.7)
A:
NA
C2:
PF0062918=MAM=PU(28.9=88.0)
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:
CAGAGGAGAGCAGCTGCAG
R:
CACTGTTGGTGCTGTGATCCC
Band lengths:
246-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]