GgaINT1017307 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:563218-563599:-
Coord C1 exon
chr17:563482-563599
Coord A exon
chr17:563392-563481
Coord C2 exon
chr17:563218-563391
Length
90 bp
Sequences
Splice sites
5' ss Seq
GCGGTGGGT
5' ss Score
6.6
3' ss Seq
CCCCTTTCTCCCCACCCCAGGGT
3' ss Score
10.02
Exon sequences
Seq C1 exon
GCAGCCGGGGCCATCCCCTCCAGCAGGGCTGCTGCTGTCAACAGCTGTGGCAGTGTGGCCGAGCACCGCTGCGACTTCGTGTGCCACTGCGGTGACTGCTCCGATGAGAACCAGTGCG
Seq A exon
GTGGGTGCCTGTGAGCGGGTGATGGAGTGGGGGCACCGTGGCTCCCCAGGCTGACCCAGCTGTGCCCTGACCCCTTTCTCCCCACCCCAG
Seq C2 exon
GGTACCTGGGGATCTCAGCCGTGCTCGGCTCCCCCTTTACCTGTGATTTTGAGGATGATGACTGTGGCTGGCGGGATGTGAGCACCTCCACCTACAGATGGGTGCGGGGCCGGGCCAGCCTGGACTCGTGGGGTACAGGGCCACACTCAGACCACACCATGGGCACAGACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:2
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=0.079
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062918=MAM=PU(27.2=74.6)
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:
CTGTCAACAGCTGTGGCAGTG
R:
TCTGTAGGTGGAGGTGCTCAC
Band lengths:
182-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]