GgaINT1017312 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:556453-557088:-
Coord C1 exon
chr17:556942-557088
Coord A exon
chr17:556588-556941
Coord C2 exon
chr17:556453-556587
Length
354 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
ATGCCACCCTGCCCCTCCAGGTC
3' ss Score
10.23
Exon sequences
Seq C1 exon
CATCCTGTGACTTTGAGTGGGACACGTGCGGCTGGAGCAGCCCCTCAGATGAGCGCCTGCACGGCTTCACCTGGGGCTGGAAGAGTGGTGTCCCCCTGGCCAAGTACCCCGGCCCTGAACAGGACCACACCCTGGGCACAGAGGATG
Seq A exon
GTAGGAGGACCTCGGGGAGCCCTGGTGTGGTTTGGGGGGAGCAGCAGGAGCTGTGGAGGGAGGGGGTTACCCGCGAATGTCCTCTCCACTCTGTCCCAGGCCTAAAAGGGCTGGGATGCAGATCGGTGCCTTTGTCAGCTCTGTCCCAACCCCAGGTATGGGCTGGTCCATACAGGACAGACCCCATGAGGGCTGTTGCCCCCCAGGCAGCAGCACTGCCCTGTTTTGAGCCCCAACCCTGCATACACTGTGCCAGCTGGCTGTAGGGCGGCCCGCAGCCTGCACCCAAAGGCAGTGAGGAACAGGGAGGGCTGTGGGACAGGGGCCACCCTGCATGCCACCCTGCCCCTCCAG
Seq C2 exon
GTCACTATGTGCACTTCGACACCCGCGTGCTGGGCGCGGGGGGCACCGCTGCCCGGCTGGAGAGCCAACACCTCCCCGCCACCACTGCCGGCTGCCTGCGCTTCTGGTACCACATGGACATCCCGGAGCACCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.260 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.3=94.0)
A:
NA
C2:
PF0062918=MAM=FE(27.1=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:
CCTGTGACTTTGAGTGGGACA
R:
TGAGGTGCTCCGGGATGTC
Band lengths:
279-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]