GgaINT0125339 @ galGal3
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
NA
Coordinates
chr17:939263-939792:-
Coord C1 exon
chr17:939560-939792
Coord A exon
chr17:939401-939559
Coord C2 exon
chr17:939263-939400
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
CCGCCGTCTGGCCCGGTGGCAGCTGGCCTTCGAGGCGCTGCGGGACGGCTTTGTGGGTGACATGGCACTGGATGACGTGGCGCTGACGCCGGGTGCCTGCGGAGCTGAGCTCTCCTGCTCCTTCGAGGCGGGCGCCTGCGGGCTGGCAGGCAGTGGGCAGTGGCACTGGCAGAGCGGCGGCACCAGCATCACCACTGGCCCCATGGCTGACCACACCACCGGCACTACCACAG
Seq A exon
GTACCCGGGGCTCTGGGCACACTGCTGCCTGCCCTGCCCGTGTGGCTGCAGCGCTCAGCCCACGGCCCCCAGCCGTATGGGGGCTGCCCACGCAGACCAGTGCCCCCCAGGAGAGCCAGGCATGGGGCAATCACAGCACTGGGCCTTCTTTCTCTCCAG
Seq C2 exon
GACATTACATGGTGGTGAATACCAGCAAGCACTCGCTGCCCATGGGGCACGTGGCCACACTCAGCTCTGCGCTGTATCAGCGCTCTGCGCCTGCCCAGTGCCTGGCTTTCTGGTACCAGCTGAGTGCCGCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000014630:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.032
Domain overlap (PFAM):
C1:
PF0062918=MAM=PD(22.3=44.3),PF0062918=MAM=PU(25.2=49.4)
A:
NA
C2:
PF0062918=MAM=FE(29.7=100)
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:
AGCTCTCCTGCTCCTTCGAG
R:
CAGCTGGTACCAGAAAGCCAG
Band lengths:
248-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]