GgaINT1026497 @ galGal4
Intron Retention
Gene
ENSGALG00000005298 | ST6GALNAC6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:HGNC Symbol;Acc:HGNC:23364]
Coordinates
chr17:4874161-4874530:+
Coord C1 exon
chr17:4874161-4874268
Coord A exon
chr17:4874269-4874340
Coord C2 exon
chr17:4874341-4874530
Length
72 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AGCCCATGGTCTGCTTGTAGTCA
3' ss Score
3.81
Exon sequences
Seq C1 exon
AGAGAAGTCACGCTCGTGGTTGAGCACAGGTTGGTTCACCATGGGGATTGCGGTGGAGCTGTGCGACGCCGTCCACGTCTACGGCATGGTGCCCCCCAACTACTGCAG
Seq A exon
GTAAGGGCCTCCCCGTCCCCAAATCCCAACCCCGGGACTCGGCACGGGGCTCAGCCCATGGTCTGCTTGTAG
Seq C2 exon
TCAGCGCCCGCAGCCCCGCCGCATGGCGTACCACTACTACGAGCCCAAGGGCCCCGATGAGTGCACCACCTACATCCACAACGAGCGCAGCCGCCGCGGCAACCACCACCGCTTCATCACCGAGAAGCGCGTCTTCGCCAGCTGGGCCGCCCCCTACAACATCACCTTCTCTCACCCCACCTGGCCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005298:ENSGALT00000008495:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.095
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(14.8=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(20.5=78.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAGCACAGGTTGGTTCACC
R:
GCTCGTTGTGGATGTAGGTGG
Band lengths:
175-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]