GgaINT0125332 @ galGal3
Intron Retention
Gene
ENSGALG00000008995 | MAMDC4
Description
NA
Coordinates
chr17:941842-942500:-
Coord C1 exon
chr17:942318-942500
Coord A exon
chr17:942108-942317
Coord C2 exon
chr17:941842-942107
Length
210 bp
Sequences
Splice sites
5' ss Seq
GCAGTAGAT
5' ss Score
-4.55
3' ss Seq
CCAGGATTACAGGAGCCCAGGAG
3' ss Score
-12.61
Exon sequences
Seq C1 exon
TCTGGGGCTTTTGGCATCAGACTCAGCTCCCGTGGCACTGCCGGGCCGGGCTCGTGCCAGCAACTGCGTGGCCGAGGAGTTCTCCTGTGATGACGGGGGCTGTGTCAGTGCCGAGCTGGTCTGCGACTTCGCCAAGGCGTGTGCTGATGGCTCCGATGAGAACCACTGTGGTGAGAGCCAGCA
Seq A exon
GTAGATGTGGGGCACCTGGCTCACCCTGCCTGCAGCCCCAGGGCGTCCTGGAAGCACCGTGCTGTGTCTATACTGAGCTATGGGTGTTGCAGGAACNNNNNNNNNNGCAGAGGGCCACCGAGCCCACGGCCACTGCCCTTGTGGGAGCAGGTGAGGCCATTCCCACCACCCAGACAGTGCTCCTTGGTCCCCAGGATTACAGGAGCCCAG
Seq C2 exon
GAGGCACAGAGCTGCTCCTGCTTGGGCGGAGGGATGTCCCCGTGGGAGGGCTGGGGGAGATGGGAGCAGGGCGCTTCTCCTGGGGGTGCTGCGTGGGGCTCTGCCCCCACCTCTCAGGCCGTTTCCTTGCCCAGGGGCTTTCTTGGCCCTTCAGAGAGGAGAAGGACAAATGGTGGCTCCCGCCAAGGCCCGCACGCCTCTGCTGGGTCCCTCCGGCCTGGCCTGCGCCATGGAGATGAGCTACCGCCTGCACAGCGGCGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008995:ENSGALT00000014630:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.142
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=67.3),PF0062918=MAM=PU(4.3=12.7)
A:
NA
C2:
PF0062918=MAM=PU(41.3=55.6)
Main Inclusion Isoform:
NA
Other Skipping 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:
GCCGAGGAGTTCTCCTGTGAT
R:
GGGAGCCACCATTTGTCCTTC
Band lengths:
294-504
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]