GgaINT1017311 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:556942-557297:-
Coord C1 exon
chr17:557207-557297
Coord A exon
chr17:557089-557206
Coord C2 exon
chr17:556942-557088
Length
118 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TAACTCACGTTTCCACCCAGCAT
3' ss Score
3.53
Exon sequences
Seq C1 exon
GTGGTGTTTGAGGCGGTGGGAGCTGGGAGTGAGCGCAGCTACATGGCACTGGATGACCTGCGTGTGTCAGATGGAGCCTGCCCTGAGCCAG
Seq A exon
GTGGGAGCATGTGTGCCGAGCACCCCATGGGGACACGTGGCCACAGGGATGGAGACAGCCCTTCCATCCACCACCAGCACCCAGCCGCACGTGCGTCTTAACTCACGTTTCCACCCAG
Seq C2 exon
CATCCTGTGACTTTGAGTGGGACACGTGCGGCTGGAGCAGCCCCTCAGATGAGCGCCTGCACGGCTTCACCTGGGGCTGGAAGAGTGGTGTCCCCCTGGCCAAGTACCCCGGCCCTGAACAGGACCACACCCTGGGCACAGAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:23
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=0.260
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.1=90.3)
A:
NA
C2:
PF0062918=MAM=PU(28.3=94.0)
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:
GTGTTTGAGGCGGTGGGAG
R:
ATCCTCTGTGCCCAGGGTG
Band lengths:
234-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]