DreINT0156619 @ danRer10
Intron Retention
Gene
ENSDARG00000036913 | st6galnac6
Description
ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:ZFIN;Acc:ZDB-GENE-060322-7]
Coordinates
chr21:3669358-3670111:-
Coord C1 exon
chr21:3670004-3670111
Coord A exon
chr21:3669542-3670003
Coord C2 exon
chr21:3669358-3669541
Length
462 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
ACTTTATTTTCCTAAAGCAGACG
3' ss Score
4.54
Exon sequences
Seq C1 exon
AAAAAAGTCTCAGTCCTGGTTAAGCACCGGCTGGTTCACCATGGTGATCGCCATAGAGATGTGTGACAACATAAAGGTTTATGGGATGGTGCCACCAAACTATTGTGG
Seq A exon
GTAAGAATCCGTTCATCTTTTAATATTTAAAGTTGAGTTGGACATTGAACACATTTTATAAGTGGTCAGAAACTTGTAAATAACTCATAAACGAATAACGTTATGTTAAAACCAAGTACACCATTGTTTTTCTTGTGAAATTCCCAATAAGTTTGATGTGTCACATGACCCTCTTCCTATTGAAAAAAACTAAAGATGGATCCAAGATGGCCGACTTCAAAATGGCCACCATGGTCACCACCTATCTTGAAAAGTTTGCCCCCTCACATATACTAATTTACCACAAACAGGACGGTAATATCCCCACTTATTCCCATTTTATTGAGGTGAATCCATATAAATGTCCCACCCTGTATATCGCAAAATTAAAAAACATTGCAATGCTAGAATTTTCCAACATTGTGCAGCCCTAATACATATCACACTTTTAACATACATTCATACTTTATTTTCCTAAAGCAG
Seq C2 exon
ACGTCCTCAACCCAAGCGGATGCCATATCACTACTACAAACCCAGAGGTCCAGACGAGTGCGTGACGTACCTCCAGAACGAGAGGGGGCTCCGCGGCTCACACCACCGATTCATCACGGAGAAACAAGTGTTTGCGCGCTGGGCAAAAGTCTACAACATCAGCTTCACCAGCCCAACATGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036913:ENSDART00000133792:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(12.9=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(20.7=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCTCAGTCCTGGTTAAGCAC
R:
CACCATGTTGGGCTGGTGAAG
Band lengths:
286-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]