HsaINT0159882 @ hg19
Intron Retention
Gene
ENSG00000160408 | ST6GALNAC6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:HGNC Symbol;Acc:23364]
Coordinates
chr9:130647601-130649870:-
Coord C1 exon
chr9:130649763-130649870
Coord A exon
chr9:130649068-130649762
Coord C2 exon
chr9:130647601-130649067
Length
695 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCCCGTCTGCTCTGTCCCAGCCA
3' ss Score
6.52
Exon sequences
Seq C1 exon
GGAGAAGTCTCATTCGTGGTTGAGCACAGGCTGGTTTACCATGGTGATCGCGGTGGAGTTGTGTGACCACGTGCATGTCTATGGCATGGTCCCCCCCAACTACTGCAG
Seq A exon
GTGAGCCCTCCTTGCCAGCGCCCTCCCAGGACAACACCCAGGCACTGGCCGCAGGATGGAGCTCTAGGGGCTGGAAACCTTGGCTGAAGGTGCCTTTGAGGGCCTCTGCTTCATTGTTTTCAAACTGTTCTTCAGAGATCTAGGCTTCTTCTCCTTCCTCAGGGGCCTCCACTCCAAGCTCCGCCAGAGTTTATTTATTAATAATAACTATTAGTAGTAGCATCATATGAAAAGCCCACTAGGGGACAGCTATACTTTACTGAATACTGACCAGGTACCAAGCATGGCCACATGTAGTCTCTCACTTACTCCTCACAGCAACCTTACGGGATAAGAACTGTTATTCTTCCCATTAATTAAATGAGAAAAACTGAGGAGTATGTTTTATGAGTAGCCAAAGGTCCTCCAAACAGTAGGAAGAGGGGCCAGGCTCCAGTGCTCACAGCCCTCACCACTGCTCCACACTGCCGCCTTCTTAGGGAAAGGAAAAAGTGCCACTGCATTTAAAAAAAAAAAAAAAATTGGTGGTTACACACCTAGTCTACCCTGCACCCATTTTATGGATGGGGAAACCGAGGCCCCAGGAGGCATGGGGATTTCTCCTATTGAGGTCCTATGGTAAGCGAGGGGCTGAAAGGGCAAGGACCCTGCCAGCGCTCACCTTGCCCTGATGACGCCCGTCTGCTCTGTCCCAG
Seq C2 exon
CCAGCGGCCCCGCCTCCAGCGCATGCCCTACCACTACTACGAGCCCAAGGGGCCGGACGAATGTGTCACCTACATCCAGAATGAGCACAGTCGCAAGGGCAACCACCACCGCTTCATCACCGAGAAAAGGGTCTTCTCATCGTGGGCCCAGCTGTATGGCATCACCTTCTCCCACCCCTCCTGGACCTAGGCCACCCAGCCTGTGGGACCTCAGGAGGGTCAGAGGAGAAGCAGCCTCCGCCCAGCCGCTAGGCCAGGGACCATCTTCTGGCCAATCAAGGCTTGCTGGAGTGTCTCCCAGCCAATCAGGGCCTTGAGGAGGATGTATCCTCCAGCCAATCAGGGCCTGGGGAATCTGTTGGCGAATCAGGGATTTGGGAGTCTATGCGGTTAATCAGGGGTGTCTTTCTTGTGCAGTCAGGGTCTGCGCACAGTCAATCAGGGTAGAGGGGGTATTTCTGAGTCAATCTGAGGCTAAGGACATGTCCTTTCCCATGAGGCCTTGGTTCAGAGCCCCAGGAATGGACCCCCCAATCACTCCCCACTCTCCTGGGATAATGGGGTCCTGTCCCAAGGAGCTGGGAACTTGGTGTTGCCCCCTCAATTTCCAGCACCAGAAAGAGAGATTGTGTGGGGGTAGAAGCTGTCTGGAGGCCCGGCCAGAGAATTTGTGGGGTTGTGGAGGTTGTGGGGGCGGTGGGGAGGTCCCAGAGGTGGGAGGCCGGCATCCAGGTCTTGGCTCTGCCCTGAGACCTTGGACAAACCCTTCCCCCTCTCTGGGCACCCTTCTGCCCACACCAGTTTCCAGTGCGGAGTCTGAGACCCTTTCCACCTCCCCTACAAGTGCCCTCGGGTCTGTCCTCCCCGTCTGGACCCTCCCAGCCACTATCCCTTGCTGGAAGGCTCAGCTCTTTGGGGGGTCTGGGGTGACCTCCCCACCTCCTGGAAAACTTTAGGGTATTTTTGCGCAAACTCCTTCAGGGTTGGGGGACTCTGAAGGAAACGGGACAAAACCTTAAGCTGTTTTCTTAGCCCCTCAGCCAGCTGCCATTAGCTTGGCTCTTAAAGGGCCAGGCCTCCTTTTCTGCCCTCTAGCAGGGAGGTTTTCCAACTGTTGGAGGCGCCTTTGGGGCTGCCCCTTTGTCTGGAGTCACTGGGGGCTTCCGAGGGTCTCCCTCGACCCTCTGTCGTCCTGGGATGGCTGTCGGGAGCTGTATCACCTGGGTTCTGTCCCCTGGCTCTGTATCAGGCACTTTATTAAAGCTGGGCCTCAGTGGGGTGTGTTTGTCTCCTGCTCTTCTGGAGCCTGGAAGGAAAGGGCTTCAGGAGGAGGCTGTGAGGCTGGAGGGACCAGATGGAGGAGGCCAGCAGCTAGCCATTGCACACTGGGGTGATGGGTGGGGGCGGTGACTGCCCCAGACTTGGTTTTGTAATGATTTGTACAGGAATAAACACACCTACGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160408-ST6GALNAC6:NM_013443:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.193
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(13.3=100),PF155481=DUF4655=PD(6.2=24.3)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(21.0=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACCATGGTGATCGCGGTG
R:
CAGAAGATGGTCCCTGGCCTA
Band lengths:
344-1039
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)