GgaINT0125336 @ galGal3
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
NA
Coordinates
chr17:940105-940572:-
Coord C1 exon
chr17:940455-940572
Coord A exon
chr17:940240-940454
Coord C2 exon
chr17:940105-940239
Length
215 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CGGTTGTTCCCGATGATAAGGAT
3' ss Score
1.76
Exon sequences
Seq C1 exon
AGCTGTCCTGCAACTTCGAGGCGGGATCTGTGCGGTTGGTACCTGGACCGGGGCAGCGACTTCCAGTGGGTCCGCAGCACAGGACAGGGGCAGGGCTCCGACCACACCACCGGATCGG
Seq A exon
GTAAGGGCCTGGCTCCTCTCATGCCACCCCGGGCAGCTGGAGCGGCCCCGCTGCCCCAGTCCCCAGGGTGGAATGTGCCCTGTGTGTCGTGAGCAGCCCTGGGAGCGAGGAGGGTGAGCTCAGCTGAGCAGCACAGGGGCACGCAGTCCCTGCGTTGGGGACATGGCAGTGCGAGAAGGATGGGTGAGTGCAGCTCGGTTGTTCCCGATGATAAG
Seq C2 exon
GATACTTCTTGGCCGTGGACCCCTCAGCACCATGGAGCCGTGGGCAACATGCACAGCTCATCACCTACAGACAGGAGCCAGCTGCTGCCCCGCAGTGCCTCGCCTTCTGGTACCGCCTGGCTGGCCCGCAGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000014630:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.035
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(22.3=87.5)
A:
NA
C2:
PF0062918=MAM=PU(14.3=92.3)
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:
CTGTCCTGCAACTTCGAGGC
R:
AGCCAGGCGGTACCAGAAG
Band lengths:
238-453
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]