GgaINT1017322 @ galGal4
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
MAM domain containing 4 [Source:HGNC Symbol;Acc:HGNC:24083]
Coordinates
chr17:561479-561816:-
Coord C1 exon
chr17:561670-561816
Coord A exon
chr17:561565-561669
Coord C2 exon
chr17:561479-561564
Length
105 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
CCATCTTGGTGTCTCCTCAGGCT
3' ss Score
8.49
Exon sequences
Seq C1 exon
AGTTCTTCACCTTCTGCTCCTTCGAGGAAGATCTTTGCAGCTGGGAAGTGGAGGCTGGGCAGCCGACATGGGAGAGGAACACAAGCGTGGGCCTGGGGACCACCTCTGGTGTTCCCACCCGGGATCACAGCACCAACAGTGCCACAG
Seq A exon
GTGTGTGCTGGCAGTGGGTCCGCCATGCCTCCCACCATCCTTTTTCCTTCTGCCTTTGTGCCCACGTGCCCAGCCCTGCTCAGAGCCATCTTGGTGTCTCCTCAG
Seq C2 exon
GCTATTTTCTCCACACCGTTGCTGGGGGGGCTGTCAGCGTGGCCAGGCTGAGCAGCCCCACTTTCCAGGCCACCAACTCCTGCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000040444:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.320 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(28.9=88.0)
A:
NA
C2:
PF0062918=MAM=FE(18.4=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:
TCTTCACCTTCTGCTCCTTCGA
R:
CAGGAGTTGGTGGCCTGGAAA
Band lengths:
226-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]