GgaINT1026495 @ 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
chr17:4873335-4874069:+
Coord C1 exon
chr17:4873335-4873514
Coord A exon
chr17:4873515-4873671
Coord C2 exon
chr17:4873672-4874069
Length
157 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
CATTGTGTCCATCGCCTCAGAGC
3' ss Score
7.44
Exon sequences
Seq C1 exon
AGCCAGCGCGCCGCCGTCTTCGTGCTTCTCTTCGCCCTGCTCATGCTGCTGATCATCTACAGCTCCAGCAGTGGCACCGAGGTGTTCCCCTACAGTGCACTGCGGGGCAGAGCCCGGCGGCCCCCCAACCTGCGGCACTGGGGGGTGAGCAGCGGGTACCTGCCTGTCTCCGGGAACAAG
Seq A exon
GTGGGCACAGGATGTGGGTATGGAGATGGGCTGTCCCCATGGGTGGGACACTGAAAGCCCCTTGGTTTGGACTCCCTATGGTTTGGACTCCCCTCGGTTTGGGGTCCCCGTGTTTTGGGGTCCCTTTGGTCTGGACTCATTGTGTCCATCGCCTCAG
Seq C2 exon
AGCCTGACTGCCCACTGCCACCAATGCGCCATCGTCACCAGCTCCAGCCACCTCCTGGGCACCCACCTGGGTGCTGAGATCGACCAAGCCGAGTGCACCATCCGCATGAACGACGCTCCCACCACCGGCTACGAGGCCGATGTGGGCAACAAGACCACCTTCCGCGTGGTGGCCCACTCCAGCATCTACCGCGTCCTCAAGAGGCCCCAAGAGTTCGTCAATAAGACCCCGGAGACCGTCCTCATCTTCTGGGGGCCGCCGGCCAAGATGCAGAAGGGGCTGTTGAAGATCATCCAACGCGTCGGCGCATCCTTCCCCAACATGACGGCCTACGTCGTCTCCCCGCACCGCATGAAGCAGTTTGATGAGCTCTTTCGGGGGGAGACGGGGAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005298:ENSGALT00000008495:3
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=0.053
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(9.8=40.0)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(54.1=100)
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:
CTTCTCTTCGCCCTGCTCATG
R:
ACTCGGCTTGGTCGATCTCAG
Band lengths:
250-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]