GgaINT0125323 @ galGal3
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
NA
Coordinates
chr17:945133-945602:-
Coord C1 exon
chr17:945429-945602
Coord A exon
chr17:945259-945428
Coord C2 exon
chr17:945133-945258
Length
170 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
CTCTGCTCTGCCCTCCCCAGGGT
3' ss Score
10.51
Exon sequences
Seq C1 exon
GGTACCTGGGGATCTCAGCCGTGCTCGGCTCCCCCTTTACCTGTGATTTTGAGGATGATGACTGTGGCTGGCGGGATGTGAGCACCTCCACCTACAGATGGGTGCGGGGCCGGGCCAGCCTGGACTCGTGGGGTACAGGGCCACACTCAGACCACACCATGGGCACAGACCAGG
Seq A exon
GTAAGCAGGGGCTGCAGCGTGGGCTCCTGCTCCTCCAGTCCAGGGTGCTTCAAGAGCACTGAATCTCCTGTCCTGGCAGGGTGCTGGGGCAGAGCCTGCAGGAGCAGTGCTGGCCACTGTGCCGGTGTCGCTCCATGGCTGCAGCCCCCGCTCTGCTCTGCCCTCCCCAG
Seq C2 exon
GGTGGTTCATGGTGACAGTGTCCCCGCCGGCAAAGGCCACAGCCACGGCCTGGCTCCAGTCACCAGTCATGCAGGAGGCGACCGCCACGTGCGAGATTTGGGCTTCGTACCACCTCTCGGGAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000014630:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(27.2=74.6)
A:
NA
C2:
PF0062918=MAM=PU(33.9=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCCCCCTTTACCTGTGAT
R:
TACGAAGCCCAAATCTCGCAC
Band lengths:
257-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]