HsaINT0159872 @ 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
chr9:130670165-130672337:-
Coord C1 exon
chr9:130672230-130672337
Coord A exon
chr9:130670861-130672229
Coord C2 exon
chr9:130670165-130670860
Length
1369 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCCTGTTCCCCACCCCGCAGGGA
3' ss Score
10.81
Exon sequences
Seq C1 exon
GAGGCAGTCGGGCTCCTTCCTCAGCACCGGCTGGTTCACCATGATCCTCGCGCTGGAGCTGTGTGAGGAGATCGTGGTCTATGGGATGGTCAGCGACAGCTACTGCAG
Seq A exon
GTCAGACCGGCCAGGCCGGGCACGCGGGGACGCGGGGAGGACTGTGAGCCCTCCTAGGCCTTAAACCAGAGGATTTGGGAGCTGTGGGGGCAGAGGGAGTGTGGGCTTCATGGTGGGTGACCATAGCACAGATACCCCTTGCGCTCTGGGCCTTGGGAAAGAGCTCAGTGTCAAACAGGCTGCCTTACCAACCCCAGTGTGGCTGTTGTGGTCACAGGCTGTTCACGGGCCAGTCATGCCACCCCGCAGACCCTCTGTTTCCTTATGTGGAAAATAGAGAAAAGAACCACATCTTACTTGGAAGGTTGTTGAAACATTTAGGGAGGGAATAATCTACAAAAGTGCTTACCACAGTCAGGGCCTATATATATAGGGCCTAAATATATATATATATATATATCAGTGATATGTTTTATATAAGTTTTAATTTTTGATATTATATGTGATTTTTGATATTATATAATATTTGATATTATAATACCAGCATGATATCAAGTTCAGATATGTTTATGGTATGATTTTGTACCATTGTTATATTATTATATTTCTTTTTTTTTTTTTGAGATGGAGTTTTGCTCTTGTTGCCCAGGCTGGAGTGCAGTGGCGCGATCTTGGCTCACTGCAACCTCCACCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCTAGTCGCTGGGATTACAGGCACGTGCCACCACGCCCAGCTAATTTTTTGTAGTTTTAGTAGAGACGGGGTTTCATCATGTTGGCCAGGCTGGTCTGGAACTCCTGACCTCAGGTGATCCTCCCGCCTTGGCCTCCCCAGGGATCAGGGATTACAGGTGTGAGCACCGCACCAGCCTATATTATTATATTTCAATATTATGGAAACTAACGAGTTCACAACAGGTCACCGAGGTGACAGGTGTCCCTGTGCCCCAGCCATGGCCCTGGCCATACGGCTGGCCCCCGTGATGCTGATGGGGAGGTGGGCGTGCAGGGCTGGTGGCTCTGTGACATGGGAATGAGGGGCTCCTCCCTCACCAGGAGCCCAGGACCACTAGCAGGGTGCCTGCAGTCTCCATCTCTTGATCTACGCACTTGTTCTGGAAGGCGGATGTGACCATCTGCGTTTTACACACGGGCTCTTGAGGCTCACAGCGTCCATCTCTGGCCCAGAGTCATCCAGCTTGCAAGAGGCAGAGCCAGGACTCGAACCCTGGCTCTCGGGATCTGCTACTCCCCTATGTGTCTTGGCCTCCCCAGGGATCAGGCGTGGGTCTTCACGAGCCCATGGGCCTGGCGAGGGGTGGTCAAGGTAGGCGGCAGGGTGTGGCCGGAGGCGAGTGGGTTCTGTCCCACCCCAGCCCTGTTCCCCACCCCGCAG
Seq C2 exon
GGAGAAGAGCCACCCCTCAGTGCCTTACCACTACTTTGAGAAGGGCCGGCTAGATGAGTGTCAGATGTACCTGGCACACGAGCAGGCGCCCCGAAGCGCCCACCGCTTCATCACTGAGAAGGCGGTCTTCTCCCGCTGGGCCAAGAAGAGGCCCATCGTGTTCGCCCATCCGTCCTGGAGGACTGAGTAGCTTCCGTCGTCCTGCCAGTCGCCATGCCGTTGCGAGGCCTCCGGGATGTCCCATCCCAAGCCATCACACTCCACAAAAACATTTAATTTATGGATCCTGCCTCCTGCCACGTGCTGGGTGGACCTAAGGTTCCTTCCCGCCCCATTCTGGCGACACTTGGAGCCATCTCAGGCCTCATGACTTGAAGGGGAGTGGAGGGGGGAGCCGTGTCTCCCCCCTCCACTCCCTGAGTAATTCACGGCATTTGGGGGCTCACCCCACCTCCAGGTCTGTCAAGTGGCCTTTGTCCCTGGGGCTGATGGCCCCCAACTCACCAGCATCATGACCTTGTGCCAGTCCTGGTCCTCCCTCCCCAGCCGCTCCTACCACCTTTTGGTGCCACACTTCTCAGGCTGGCCGCCCTGGTTGGGGCAGCCGAGAGCCTGGGGTTCATTGGTGAAGGGGCCTTGGAGTTGTGACTGCCGGGGCCGTATCAGGAACGTACGGGTAAACGTGTGTTTTCTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136840-ST6GALNAC4:NM_175040:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(14.8=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(23.0=87.5)
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:
CTGGTTCACCATGATCCTCGC
R:
TTGTGGAGTGTGATGGCTTGG
Band lengths:
344-1713
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)