GgaINT1017301 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:559346-559723:-
Coord C1 exon
chr17:559575-559723
Coord A exon
chr17:559477-559574
Coord C2 exon
chr17:559346-559476
Length
98 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCC
5' ss Score
8.33
3' ss Seq
GCACCATCTCTCATGCTCAGGTT
3' ss Score
7.19
Exon sequences
Seq C1 exon
GCCGTTTCCTTGCCCAGGGGCTTTCTTGGCCCTTCAGAGAGGAGAAGGACAAATGGTGGCTCCCGCCAAGGCCCGCACGCCTCTGCTGGGTCCCTCCGGCCTGGCCTGCGCCATGGAGATGAGCTACCGCCTGCACAGCGGCGCCCAAG
Seq A exon
GTATCCCAGCCCGGCTGCGCCCTGCCAGCCCTGTGGCTGCAGGCTGGGTGTTGCTGGGCAGTGCTGCCCGGGTACCCCGCACCATCTCTCATGCTCAG
Seq C2 exon
GTTTCCTCGCTGTTGCTGTCACGGAGCACTCCACGGACATGACGCACCTGGCCTGGCACACGCGGGGGCACGGCAGCACAGCCTGGGAGCACGTCCACATCCCGCTGGGGGAGAGGGCCCGGCCCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.205
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(31.0=100)
A:
NA
C2:
PF0062918=MAM=FE(27.7=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:
CTTGGCCCTTCAGAGAGGAGA
R:
GTCATGTCCGTGGAGTGCTC
Band lengths:
168-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]