GgaINT1017300 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:559575-560014:-
Coord C1 exon
chr17:559909-560014
Coord A exon
chr17:559724-559908
Coord C2 exon
chr17:559575-559723
Length
185 bp
Sequences
Splice sites
5' ss Seq
TGTGGGAGC
5' ss Score
-5.03
3' ss Seq
GCTCTGCCCCCACCTCTCAGGCC
3' ss Score
8.39
Exon sequences
Seq C1 exon
GAACCACCACCTTTGAGGAAGGGGCCGGGGGCTGGCACGACACCAGCGTGGGCCAGCTGCGCTGGGCTGTGCAGAGGGCCACCGAGCCCACGGCCACTGCCCTTGT
Seq A exon
GGGAGCAGGTGAGGCCATTCCCACCACCCAGACAGTGCTCCTTGGTCCCCAGGATTACAGGAGCCCAGGAGGCACAGAGCTGCTCCTGCTTGGGCGGAGGGATGTCCCCGTGGGAGGGCTGGGGGAGATGGGAGCAGGGCGCTTCTCCTGGGGGTGCTGCGTGGGGCTCTGCCCCCACCTCTCAG
Seq C2 exon
GCCGTTTCCTTGCCCAGGGGCTTTCTTGGCCCTTCAGAGAGGAGAAGGACAAATGGTGGCTCCCGCCAAGGCCCGCACGCCTCTGCTGGGTCCCTCCGGCCTGGCCTGCGCCATGGAGATGAGCTACCGCCTGCACAGCGGCGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=NA C2=0.081
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(21.4=91.7)
A:
NA
C2:
PF0062918=MAM=FE(31.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAACCACCACCTTTGAGGAAG
R:
GTGCAGGCGGTAGCTCATC
Band lengths:
242-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]