HsaINT0159880 @ 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
chr9:130652916-130656970:-
Coord C1 exon
chr9:130656791-130656970
Coord A exon
chr9:130653323-130656790
Coord C2 exon
chr9:130652916-130653322
Length
3468 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCG
5' ss Score
6.91
3' ss Seq
TGACTTTCCTTATCCACCAGACA
3' ss Score
7.87
Exon sequences
Seq C1 exon
GAGCAGCGGTCAGCAGTGTTCGTGATCCTCTTTGCCCTCATCACCATCCTCATCCTCTACAGCTCCAACAGTGCCAATGAGGTCTTCCATTACGGCTCCCTGCGGGGCCGTAGCCGCCGACCTGTCAACCTCAAGAAGTGGAGCATCACTGACGGCTATGTCCCCATTCTCGGCAACAAG
Seq A exon
GTAGCGCAGCTGCTTTGGGGAGCTCCTCCCTACTGCCCAGCATCACCACTCCCTCCACCTGTTCTTTCCTAAAGGAAAGGTGGACCCTGAGAGTCAAGGCCCTGCCTCCGGTGATTTCATCTTGCTGCTTGCTGTGTGACCTTGGATAAGTGCGCTGCCCCTGTCTGGGCCTCAGTTCTCTCCAAGTCCCCACCCTTATTGCTAATATCCTACCATCTCCTGAATCAGAATCCTTTTGAAAATGTGTTTCTGTTTTCACTGCTCTCTGTCTCTGCTGGGGAGCCCACACAGGCTTGGGAGCAGAGCACTGGGACATTTGACAACACAAAAGCAGTAATAATACCGGCTGCCTTTTATCAAGTGCGTGTGTGTGCCAGGCCCTTTGATCACCAGTAATCCTCAGACAAGCCCTGTGAGGGCAGCATTATTATCTTCCTTGGTGAGATGGAGTAACCAAGGCTCCGAGAGGTGAAGTCACATGTCTAAGGCCACACAGTGAGGGAAGGAAGAAGATGGTATTTTCCTACCCGCTGCTAAGATGCAGCTGCACAGAGAGGCCAAAGTCATTCCTGGGGACTTCTGTTGGCCTTGGGTAGCCATGAAATTCAGATTGTATTTCTGAGGTTCACCCTGTAGTACCTCTTTCTCCTTCCTCACTGACCCTCCTATATTTTCTTCAGGGCCTTCGCATGCAGAGTGTAGAGCCCGGGCTCTGGACACACCCTCACTAGGAAAGGGCACATTAGCAGGTGTCTGGAGACAGGTTAACACCTAAGTGAGTCTTTCTCTACCCTAAGAACCCTTGAAAGCGGAATAAAAATGGGACAGCTTGAGTGTGGGTGATGTGGAAAGGAGAGACAGAGCCTGGCTTGCAGTGCTTCCAGCATCACAGGGGAAGCCAAAAAAACTAGCACTCAGAAAAGTGGGAGTGCCAGTCGAGGTACGTGGGATGTGTTGCTGGATCTTGGAGTAAGGGCTCAGGGAAGGCTGCCTTGGGGAGGGTGGTATTTGAGCTTAGCCTTAAAGGGTGAATGGGAATTCCGTGGGCAAAAAATAGACCCCAGAGAGTATGTGGTTCCAACCCATTCATTTCAGCCATGGAAAAACAAGCCCAGAGTGGCTTTCACACCTTCCTTAATAACAAGGTGGTTCTTGTTTCTGGGTGCTGTGGAAATGTCATGGGTGCTTTTTGGAAGATGTCTTCTTTGGAGAGCTGGGAATCTGTGGTCACATAGACTTTGTGACCTGCTGTTCTCCCACTTGTTGACTCTGCCCCAACTGAATGGCCTTCTTTTGGTTTTCAGTGTACCACCTTTATTTCCACATTGGAGCCTTTGTGCTGGCTGTTTCTCCTGCCTTGAATATGTTTCCCTAGGTGGTCCTTCTTCATCCTTCACATCTCAGCTCAGAGAGACGTCTCTGTTACAGCCGGACAGCTTCTTGCCTGCTGCCCAGGAAAAGCCAATACACTGAGACTGCGGGTGTTGCAGCAGAGAAAGGGTTTAACAATCGCAGGGCCAGCCAAATGAGGAGGCGTGGGATAGTTCTCAAATCTGCCTCCCCCAGAATTTGGAAGCCAGGGTTTTTAAAGGATAGTTTGGCAGGCAGGGGGACTAGAGAATGGTTGGGGATGAAATCATAGGGGTGTTGAAACTGTCTTCACCTGCCGAGTCAGTTCCTGGGTGGGGGCCATGGGTCACTGGTCTGGTTGGCATCCATTGATCTACCAGATTGCAAGGTCTGAAAAATATCTCAGACACTCAGGTTTTACAATAATGATGTTATCTATGTTAAAAACAACGATGATGTTATCTATATTTTAAAAAGCAACCTAAGAAACAATGACTGGTTATAATTCAACTATAGCTACATCTTAGCAGAAAAGCAAGCTAAGAGATAATGACTGGTTATGGTTTATGCCTACAGCTTGACAGAAAGGTGTGCGGGGGGTGAGACAATCAATTCTTAGTGACCACCTTCTATCGAACTGACTATATGCAGGCAATCATGCATCTACGAAGAGAAGGACAAAGGAAAAGGAAAATAAGTAAAACAAATGATTTTACTACACCTGTATCCTAGCAGAGTCCAGGCCTCTGTCTCAGTTGTTACCTTGTGGCCTTTTATTAACTTTACAAAGTCAGTTTTAGTCCCCAAACAAGGTGGAGTTCAGTTTTGGGAAGCGGCTGTTATCATCTTTGCTTCAGAGTTAAACTATAAAGTAAATTCCTCTCATAGTTAGCTTAGCCTATGGACAGGAATGAGCAAGGGTGGTTAGACTGTGAGGTCAGAAACAGGATGGAGTCAGTTATGTTAGATTCCTCTCACTAGATTCTTTTTTTTGTTTTGTTTTGTTTTTTGAGATGGAGTTTCGCTTTTGTTGCCCAGGCTGGAGTGCAATGGCTCGATCTCGGGTCACCGCAACATCTGCCTCCGGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAACTGGGATTACAGGCATGCGCCACCACACCTTGCTAATTTTGTATTTTTCATAGAGATGGGGTTTCTCCATGTTGGTCAGGCTGGTCTCGAACTCCTGAGCTCAGGTGATCCGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCGCACCTGGACTTCCAGGCCACCACTCCTAAAGTGCCCTGGCTGCAGTCGCTCTTTGGTCACTTGCCCCTGTTTCCCCTCCCTTCCCCTCCCCTCCCTCTCCCCCCTCTCTGTCCCCTCCCCCTGTCTTCTTCCCCTCCCCCTCCCCCTCCCCTTCTCCCTCTCCTCTCCTTTCCTTTCCTTTTTCCCCTTTCCTTTCCTTTTTCTTTTCCTTCTTCTTTCCTTTCCTTGTTTCTTTTCTTTCTTTCTTCTTACCTTTCTTTATTTCGACAGAGTCTTGCTCTGTCATCTAGGCTTGAATGCAGTGGCACGATCTAGGTTCACTGCAACCTCTGCCTCCAGGTTCGAGCAATTCTTGTGCCTTAGTCTCCCGAGTAGCTGTGATTACAGGCACGCGCCACCACGCCTGGCTAATTTTTGTATTTTTTGGTAGAGATGGGATTTCACCATATTGGCCAGGCTGGTCTCGAACTTCTGACCTCAGGTGATCCGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCTACAATGCTTAGCCATTTGCCACTATTTTCTTTTTTTTTCCTGGCATGTATTATGTGCATTCTTATCTGTCTCCCCACCTGTTTCTTGAAGGCAGAAGCCTGGTCTGTTTTGCTCCTTGCTCTGCCCCAGGACTTGGCCATTAACCAGCTTGCTATCAATGTGTGCTGAATGTGGAATGAATGGGCTCAGTTTCCCTGTCTTTAAAATGGGCATAACAATTCCTGGGTCCTGGAGGCCTGGATGTATGGAGCACAGGGCCAGCACAGAGTGGCCGTGATAATGTTGACTTTCCTTATCCACCAG
Seq C2 exon
ACACTGCCCTCTCGGTGCCACCAGTGTGTGATTGTCAGCAGCTCCAGCCACCTGCTGGGCACCAAGCTGGGCCCTGAGATCGAGCGGGCTGAGTGTACAATCCGCATGAATGATGCACCCACCACTGGCTACTCAGCTGATGTGGGCAACAAGACCACCTACCGCGTCGTGGCCCATTCCAGTGTGTTCCGCGTGCTGAGGAGGCCCCAGGAGTTTGTCAACCGGACCCCTGAAACCGTGTTCATCTTCTGGGGGCCCCCGAGCAAGATGCAGAAGCCCCAGGGCAGCCTCGTGCGTGTGATCCAGCGAGCGGGCCTGGTGTTCCCCAACATGGAAGCATATGCCGTCTCTCCCGGCCGCATGCGGCAATTTGACGACCTCTTCCGGGGTGAGACGGGCAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160408-ST6GALNAC6:NM_013443:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.065
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(23.7=70.0),PF155481=DUF4655=PU(0.1=0.0)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(75.1=97.8),PF155481=DUF4655=PD(98.4=91.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)