GgaINT1017320 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:562044-562481:-
Coord C1 exon
chr17:562397-562481
Coord A exon
chr17:562170-562396
Coord C2 exon
chr17:562044-562169
Length
227 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TGTGTCCCACGGCCCAGCGGCTG
3' ss Score
-3.47
Exon sequences
Seq C1 exon
CTCACCTTCGCCCTGACACAGCCGCCCGCATGTGGGGCAGTGCTGGCACTCGATGACATTGTCTTCAGGAACTGCGGCTTGCTGG
Seq A exon
GTGAGTGCTGTGGCTGCTGAGATGGTGCTGGGACCCCGGGGAGGTGCTTGGCCTTGGTGTTCTGTGCAAGCTCTCCCACCGCCCGTGGTGGTCTGGGGTCAACTGTCCTGGCCAGGGCACAGAGTGGACAGAGGGAGTCCATCTCTTGGGTGTGGGGAGCAGCCCGGGAGACAGAGCAGGGAGCCTGGCACAGAGTGGTGCTGACACTGTGTCCCACGGCCCAGCGG
Seq C2 exon
CTGGGCAGCAGAGCTGCGGGGCAGAGGAGAGCAGCTGCAGCAGAGGATCCTGCCTGGCCCTGGGCCGCTTCTGTGATGGCACCGATGACTGCGGGGATGGCTCTGATGAAGACGCAGAACAGTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:6
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=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(16.0=89.7)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=90.7)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTCACCTTCGCCCTGACACAG
R:
GGCACTGTTCTGCGTCTTCAT
Band lengths:
211-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]