GgaINT0124771 @ galGal3
Intron Retention
Gene
ENSGALG00000005063 | ST6GALNAC4
Description
NA
Coordinates
chr17:5506481-5507086:+
Coord C1 exon
chr17:5506481-5506893
Coord A exon
chr17:5506894-5506978
Coord C2 exon
chr17:5506979-5507086
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CCCACCGCTGTGCCCCGCAGGGT
3' ss Score
9.61
Exon sequences
Seq C1 exon
CCGCTGCGCAGAGCTCCGTGCCGCCGCTGCGCCGTGGTCTCCAGCTCGGGGCAGATGCTGGGATCGCACCTGGGCCGGGAGATCGACGGGCAGGAGTGCGTGCTGCGCATGAACCACGCCCCCACCGCCGGCTTCGAGGAGGACGTGGGCACGCGGAGCACCGTCCGCGTCGTGTCGCACACCAGCGTCCCGCTGCTGCTCAGGAACCAGCCCTACTTCTTCCAGCAGTCCCGGGACACCATCTACGTCATTTGGGGTCCCAGCAGGAAGATGAGCCGCGAGAAGGGCGGCCCGACGTACCGAGCCCTGCTCAGGGTGCTGGAGATGTACCCCCGCCTGCAGCTCTACACGCTGACTGAGGAGAAGATGGCGTATTGCGACGACGTCTTCCAGAACGAGACAGGGAAGAACAG
Seq A exon
GTACTGCGGCCCCCCCGCCTGCCCCCCGTGGCACCGCTTCCGTCCGTCCGTCCGCGTGTCCCCATCCCACCGCTGTGCCCCGCAG
Seq C2 exon
GGTGAAATCCGGCTCCTTCCTGAGCACAGGGTGGTTCACCATGATCCTGGCCATGGAGCTGTGCGAGCACATCTGCGTCTTCGGCATGGTCAGCGACAGCTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005063:ENSGALT00000039907:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(56.8=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(14.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGATGAGCCGCGAGAAGG
R:
CAGGAAGGAGCCGGATTTCAC
Band lengths:
169-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]