HsaINT0159867 @ 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
chr9:130678687-130679305:-
Coord C1 exon
chr9:130679105-130679305
Coord A exon
chr9:130678774-130679104
Coord C2 exon
chr9:130678687-130678773
Length
331 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGA
5' ss Score
8.24
3' ss Seq
GAGTTTCTGGGTCTTGGCAGGTG
3' ss Score
7.33
Exon sequences
Seq C1 exon
GCGCGGATCAGCTTCCAGCCCAGTCGGCCCGGCCCGGGGGCCATGGAGCTCCGAGCGGCGGATCGCGAGCCTCCTGCGAACCCCAGCCTGCACGCCCGGTTAGCATTCGGCCGGGAGATGCGGCAGTGGAATCTGGAAGGGCGGTGAAAAACCTACGTCCTGCCCTCGCCCGGCCTCTCCATTCGTCCCCCGGGTAGAGAG
Seq A exon
GTAGGATGGATGGGGTGGAATTCCGGGCTTCTGGCTCTCTCTGCCCCAGACCTGATGGGTGACCTTGAGCTGGGGGCGCCTCCTCGCTGCCTCTTCCTCCCCATCTGCGCACTGGGAATTGGGTTGGCAGGAGGTCTCGCAAACGTCGCTGATTCCTGCTCCTTTAGGATGGGGACATTGCCTTCCGGTGTTTGGAGACGTCAAGGGGTTGGATTCCCGGGTGCCATGTGCTTTCACCCCGGCCTGTACCCTCTCCTGCCTCAGTTTTCCCTATAGCTTAGAACCCCACCTGCCTTACCCCTCCCGGCTCTGAGTTTCTGGGTCTTGGCAG
Seq C2 exon
GTGCCCGGCTCCCACCCCTTCCCAGCCCCAGCCCTGGAGACAGCAGCCCCTAGACTACTGAGGGACAGCGACAGCATGAAGGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136840-ST6GALNAC4:NM_175039:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCGGATCAGCTTCCAG
R:
GAGCCTTCATGCTGTCGCTG
Band lengths:
286-617
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)