GgaINT1017297 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:560393-561216:-
Coord C1 exon
chr17:561058-561216
Coord A exon
chr17:560478-561057
Coord C2 exon
chr17:560393-560477
Length
580 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
ACCGTGGCGCTTCCCTGCAGGTG
3' ss Score
11.18
Exon sequences
Seq C1 exon
CTCGTGCTGTACTGCCATCTCCATGGCTCGGCCACCAGCAGCCTCAGAATCTCCTATGTGATCAACTCCACCGAGCACCTGGTGAGAGAGAGGACAGGGGACACAGGCAGCTGCTGGGTCCGCGAGCGAGTGGACTTCAACCTGAAAGAGAGCTTCAAG
Seq A exon
GTGGGCTGGGGCTGTGCTGGGTGAGCGGGGTACCCACGACCCCTCTCCAACCGGGGACCCGGTGGTGGCACTGCCCTGGCCCCAAAGCCTGCCCCTTACAGCAGCCTCCACCAGCACTGCCCCAAGGCAAGGGGCTCCCCCATGCCGTGTCTCTGGTCTGTGCACCCACAGTGTGCTCTCATGGGACCAGCGAATAAGACTTGGACTGGTAACCAGAGGCCAGCGCTGAGCCTCCTGGTGCGTCCCCACATCCTCCGTTTACAAATCCTCCCAGAGCCCAGAAACCACCCTGCTGGACGGGGGAGCAGTCCTCACACATACCATGTCACCCCACAACTTCCCCCAGCCCATCTGCCCTCCCCTATGGCCACCCACCCGGCCAACGCCTCCCAGCGTGGGGGCACCCATGTTGGCAGCCCAGCAGCACCCGGTGGCACGTTGGGCAGCTGCAGGACACGGGACATGCACAAGGCAGCACCCCTCCCCCAGACCTACTACTTGCAGGCTCAGCATCGCCCTAACCCCCGCACAGACCCTTCCCCAGGGGTGTGCTGACCACCACCGTGGCGCTTCCCTGCAG
Seq C2 exon
GTGCTGATCACGGGGGAGGCGGGCAGCGGGGGCTCCGTGGCTGTGGATGACCTGATCCTGTCTCCGGGCTGTGTGCTGCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:10
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=0.006
Domain overlap (PFAM):
C1:
PF0062918=MAM=FE(34.2=100)
A:
NA
C2:
PF0062918=MAM=PD(16.4=86.2)
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:
CTCGTGCTGTACTGCCATCTC
R:
CAGCCCGGAGACAGGATCAG
Band lengths:
230-810
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]