HsaINT0159871 @ hg19
Intron Retention
Gene
ENSG00000136840 | ST6GALNAC4
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:HGNC Symbol;Acc:17846]
Coordinates
chr9:130672230-130674959:-
Coord C1 exon
chr9:130674547-130674959
Coord A exon
chr9:130672338-130674546
Coord C2 exon
chr9:130672230-130672337
Length
2209 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TGTCCCCCCGCCACCCCCAGGAG
3' ss Score
9.23
Exon sequences
Seq C1 exon
CCGCTGGTCCGCGAGCCCTGCCGCAGCTGTGCCGTGGTGTCCAGCTCCGGCCAAATGCTGGGCTCAGGCCTGGGTGCTGAGATCGACAGTGCCGAGTGCGTGTTCCGCATGAACCAGGCGCCCACCGTGGGCTTTGAGGCGGATGTGGGCCAGCGCAGCACCCTGCGTGTCGTCTCACACACAAGCGTGCCGCTGCTGCTGCGCAACTATTCACACTACTTCCAGAAGGCCCGAGACACGCTCTACATGGTGTGGGGCCAGGGCAGGCACATGGACCGGGTGCTCGGCGGCCGCACCTACCGCACGCTGCTGCAGCTCACCAGGATGTACCCCGGCCTGCAGGTGTACACCTTCACGGAGCGCATGATGGCCTACTGCGACCAGATCTTCCAGGACGAGACGGGCAAGAACCG
Seq A exon
GTGAGCCTGGGGCCTGCCTGCTGGGGTCTCTCTGGCAGCTGGGGCCTTCCTTCTCTGGGAGTCTCTTGTCCATCAGGGGCTGCTCTGTCAGGCCCGGGAGGTCAGCACTCATGGAGGCAGACATGGTCCTGCCCTCTAATGGGGGGCAGGAGGCAGAGGGGATGTCACTCAGGAAACTGTCACACAGATCTAGAATCCCAGATGGTGTTGAGGGCTGTCAGGCCTTTTGAGCACCTGATGGGAAGCACTAGCCAGTGTGTAGGGGCATGAGGGAGCACTTCTCTCTGGAGGGAATGGTCTGTCTAACTTGGTCTCTGATATCCCTTCTGGATAATAAAAGTTAGAGGCCGGGTGCGGTGGCTCACGCCTGTAATCCCAGCATTTTGGGAGGCCAAGGCGGGAGGATCACTTGAGGTCAGGAGTTTGAGGCCAGCCTGGCTGACATGGTGAAACCTTGGGCTCTACCAAAAATACAAAAATTAGGGCTAGGCCCGGTGGCTCACGCCTGTAATCCGAGCACTTTGGGAGGCCAAGGTGGAAGGATCACGAGGTCAAGAGATCAAGACCACCCTGGCCAACATGGTGAAACCCCATCTGTACTAAAAATACAAAAATTAGCCGGGTGTGGTGGCGCATGCCTGTAATTCTAGCTACTCAGGAGAGTAGCTGAGGCAGGAGAATCGTTTGAACCTGGAGGCAGAGGTTGCAGTGAGCCAAGATCGCACCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAGCAAAACAAAACAGAGCAATAACAGCCCTCTTTGCTCACCAGGCATTGGGTGAAGCACTCCGCATTCAAGGTTTCATTTTATGTCATATCCAAAAGCACACTCATGACTCTTGCCAGCCCCTCCTCCACACACCTGCTCTCCACTGGCCTCTGTGCTCAGGAGATAGAACAGTCAGCCTCTGGTGTATCCCCCAGAAAATTGGGCTGTGCCTCTGATTCCTCTCGTATCATCATCTGCCACGTACAATGGCCCATGGCTGCCACCTTGACTTAGGCTTCCCGCCCCCACCACTCCTGGCCTGCCTGCCCTGCGTGATCCTGCCTCTGCCTGCCTCTGTGACTTTGTGTCTCCTTCAGTCTCCCTGTTCTACCCATACTGGCCGTCTGGGGCTCAGACATCCATGCCTATTTCTACCTGCAGGACTTTGCACCTGCTGTTCCCTCTCCCTGGAATGTTCTTCTCCCAGATCTTCCCATGACAGGCTCCTCTTGTTACTCAGGTCACCTCCTCAGGGAAGCCCGCCCTGACCACCCCATCAGAAGGAGTGCCTCCCGCCCTGGCATTCTTTATCCATTCCTTTGTTTCCTTGTCTTGGCAGCAGGTGTCACCCTCTGCCATCATCTTGCTTAGAGATTTGTCTCCTAGCTACTTGTTTATCTATTTTTCTCCTTCCCTTCCCATCTGGTGCTTCCGTGGAATGTTAGCACCAGATGAGGTAGGTTCTGGGCCAGCACAGGGCCTGGGTGGGGCTCAGTTTGAATGAATGAACCAGTTCATACCCGCTCTGTAGAGGTTGAGAGGGGTGGCCCTTGGCTGCAAGAGTACCCAGGGCTGCTGCCTCCAGGGAGCTGAGGCTGGGGCCACCACCTAGCCCCTTGCTCTGAGTGGGGCATGGGGGCATGCGGGCAGGGGCTGGGCTGACAGTGTTCCCTCCCTATAACCCCCTAAAATTATCTCCACTTCACAGACTGGTCATGAGGCTCAGAGAGGTTCACGAGCAAATGTGATGCCCATAGCAGAGCCAGGGTTCAAGTGGAAGATCCTTGGACTCTAGAGAACCCCCACCTGACTTCAAACCACGGTGCCCTGCTGCCTCATGCTGTCTCCCCAGGCCTGGTCCCTTAGATGAGGAGAGGACGTGGCCAGAGCCCCCACACCCATCATCCAGGGGTTTGCTCAAACCCTGCAAAGCGTAGCTGGGCCCGAGCCCCGCTGGGTGCTGAGGAGGTGATCAGGCCTGGGTTTGTGTGCCGCTCTGCCTGTCACCCACTGCTGGCCTTGGGCTGGCTCTGTCCCCTCCCCAGCCTCCCCCAGAGCCCCCCGCAAGAGGTTGAGGTGCATAGCCCCGGGCTGGCAAAGTACCAAGTGCTGCTGGGGCCTGGAGCTACCACATGGCCTCTTGTTGACAGCGTCCCCCTGTCCCCCCGCCACCCCCAG
Seq C2 exon
GAGGCAGTCGGGCTCCTTCCTCAGCACCGGCTGGTTCACCATGATCCTCGCGCTGGAGCTGTGTGAGGAGATCGTGGTCTATGGGATGGTCAGCGACAGCTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136840-ST6GALNAC4:NM_175040:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(55.9=99.2)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(14.8=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:
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)