GgaINT0123814 @ galGal3
Intron Retention
Gene
ENSGALG00000004986 | CERCAM
Description
NA
Coordinates
chr17:5563718-5564546:-
Coord C1 exon
chr17:5564343-5564546
Coord A exon
chr17:5563860-5564342
Coord C2 exon
chr17:5563718-5563859
Length
483 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
TCTCCTCCCGCTCTCCCCAGCGA
3' ss Score
10.9
Exon sequences
Seq C1 exon
CTACCTGGGGAGGAAGCAGGTGAATGCAGAGGATGAAGCTCCTGTGGAGGGTGTCCAGAACCTGGTGGTAGCCGGGTATTCCTACTGGACGCTGGCGTACGCCATCTCCCTCCGTGGCGCCCAGAAGCTGCTGGCTGCCAAGCCCCTCTCCAAAATGCTGCCTGTGGATGAGTTCCTGCCCATCATGTACGACAAGCACCCCAA
Seq A exon
GTAAGGAGCAGAGCTGCGCTGCCGTGGGAACATGTGGTTCTTCTCCATTGCCACCATCCCATCCCGTCTCTCCCCTCCACCCCGGCTGGAGGAAAACATCTGCAGCATGAGCTCATTCCCCCCCGGCCCCGCCTGGCTGCCGGCTGCTGGAAAATGGCCCTCTGCCAGCGGGGCGGCGGGGATGGAGCTGGGGTGTGGGGCTGGTCTGTGCGGAGGGCTCAGCCCCATTGTGGCACCTCACCGGATGGGGGTCCTGGAGGGGGAGGCAGCTGGGGGTGGGCAAGCGCTGGGGGAGGAGACATGGGAAAAGGGGAGAACAGGATGGCAAAACGAAGGGTTGGAAGGGTGGGGGGGAACCACTCTGAGCACAGAGCATCCCTGGTCCCACTGTCACTCCCAGAGCAGTGCCGTCCCCCATGCACCCACTCCATTGCTGTGTTCTGCATCGCTCCTTATGTGTCCCTCTCCTCCCGCTCTCCCCAG
Seq C2 exon
CGAGGACTACAAGAGGCACTTTGCCCCACGGGAAACGCAGGTGTTTTCGGCTCACCCACTCCTGGTTTATCCCACCCACTACGCCGGGGACAGCAACTGGCTGAGCGACACAGAGACCTCCACCATCTGGGATGATGACTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004986:ENSGALT00000007990:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(31.9=85.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGGAGGAAGCAGGTGAAT
R:
GGAGTCATCATCCCAGATGGT
Band lengths:
342-825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]