GgaINT1017308 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:557660-558167:-
Coord C1 exon
chr17:557957-558167
Coord A exon
chr17:557798-557956
Coord C2 exon
chr17:557660-557797
Length
159 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TGGGCCTTCTTTCTCTCCAGGAC
3' ss Score
11.77
Exon sequences
Seq C1 exon
CTGGCCTTCGAGGCGCTGCGGGACGGCTTTGTGGGTGACATGGCACTGGATGACGTGGCGCTGACGCCGGGTGCCTGCGGAGCTGAGCTCTCCTGCTCCTTCGAGGCGGGCGCCTGCGGGCTGGCAGGCAGTGGGCAGTGGCACTGGCAGAGCGGCGGCACCAGCATCACCACTGGCCCCATGGCTGACCACACCACCGGCACTACCACAG
Seq A exon
GTACCCGGGGCTCTGGGCACACTGCTGCCTGCCCTGCCCGTGTGGCTGCAGCGCTCAGCCCACGGCCCCCAGCCGTATGGGGGCTGCCCACGCAGACCAGTGCCCCCCAGGAGAGCCAGGCATGGGGCAATCACAGCACTGGGCCTTCTTTCTCTCCAG
Seq C2 exon
GACATTACATGGTGGTGAATACCAGCAAGCACTCGCTGCCCATGGGGCACGTGGCCACACTCAGCTCTGCGCTGTATCAGCGCTCTGCGCCTGCCCAGTGCCTGGCTTTCTGGTACCAGCTGAGTGCCGCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(18.7=39.7),PF0062918=MAM=PU(25.2=53.4)
A:
NA
C2:
PF0062918=MAM=FE(29.7=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:
AGCTCTCCTGCTCCTTCGAG
R:
CAGCTGGTACCAGAAAGCCAG
Band lengths:
248-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]