HsaINT1043102 @ hg38
Intron Retention
Gene
ENSG00000136840 | ST6GALNAC4
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:HGNC Symbol;Acc:HGNC:17846]
Coordinates
chr9:127916408-127917026:-
Coord C1 exon
chr9:127916826-127917026
Coord A exon
chr9:127916495-127916825
Coord C2 exon
chr9:127916408-127916494
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:ENST00000335791:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
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
Mouse
(mm9)
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]
SPECIAL DATASETS
- Autistic and control brains