RnoINT0144218 @ rn6
Intron Retention
Gene
ENSRNOG00000048870 | St6galnac4
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:RGD Symbol;Acc:1303005]
Coordinates
chr3:11607225-11607831:+
Coord C1 exon
chr3:11607225-11607382
Coord A exon
chr3:11607383-11607730
Coord C2 exon
chr3:11607731-11607831
Length
348 bp
Sequences
Splice sites
5' ss Seq
TAGGTTAGC
5' ss Score
2.58
3' ss Seq
GGATTTGTCTCTTGCCTCAGTTT
3' ss Score
6.14
Exon sequences
Seq C1 exon
CCCGGCGGAGCTGCTCCAGCTTCCAGGCTTCAGAAGCTGCGGCCGCAGGACCGCCTCCTACCCGGGGCCGGATTCCGGCCCCTCTGGCCAGGCCCACTGGACATGGAGCTCCGACCAGCGCATCCTGAGCCCCCGGCGCACTCCAACCTGCTCGTTAG
Seq A exon
GTTAGCGCTCAGCTTGGGGAGGGGACGGTGGAAGCTAGCATGGTGAAAACCCCACATCCTTTCCGCCCCAGGCCTCTCCATCGCCCCGCGGTAGAGAGGTGGGATGGATGGGGAAGATGTTTTTCTGACTCCTGGCTTTCTTTGCCTGCCTCTCACCGAGTGGATGACCTTGAGCCGAGAGCGCTTCTTCTTTGCCTCTCCTTCCCCATCTGAACAATGGGGATTGGTTTGGCAAGGTCTCTGAACCCACGGCCTTTAGGATGGGACACGTTGTCACATGCTTGGAGACTTTAAGGCTTTTGGTTACTGGGCCCATTTTCCTTGACCTGGATTTGTCTCTTGCCTCAG
Seq C2 exon
TTTCCCTCATATTCTGGGACCAGCTTCGAGCCTTTCTCATCCCAAGCTCTGGAGACAGCAGCCTCCAGACTGCTGAGTGCAGAGACAGCATGAAGGCCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048870:ENSRNOT00000072685:1
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
(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:
TGCTCCAGCTTCCAGGCTTC
R:
GGGCCTTCATGCTGTCTCTG
Band lengths:
246-594
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]