RnoINT0144187 @ rn6
Intron Retention
Gene
ENSRNOG00000001823 | St6gal1
Description
ST6 beta-galactoside alpha-2,6-sialyltransferase 1 [Source:RGD Symbol;Acc:3676]
Coordinates
chr11:80977209-80978746:-
Coord C1 exon
chr11:80978668-80978746
Coord A exon
chr11:80977855-80978667
Coord C2 exon
chr11:80977209-80977854
Length
813 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TTTGTCTTTTGTTTCTATAGGCG
3' ss Score
10.92
Exon sequences
Seq C1 exon
GAACGAGCTGGGTAGGAAAGGACTTCAGAGTCACAGGACAAGCAAAGTCCCAGGGGCGCAATTGCTTTGACTCATCCCG
Seq A exon
GTGAGTAAACTTGGGAGAGGAAAGAATTTAATGTTTTCCAAAGGATACAGACCTTGTTTGAGTACGGAGTGTTTCCCTCTTTCACTTAGTCATCAGTGGACTGTGAGAAAGCCAAGATATGAAGGGCCCAGATATGAAGGGGCCATCCTAGCTATCTTACCAAGATCTTATCTTCTGTCATAAAATGATCTAGCAACTCTAGTACACTGAATGGGGGACTGTGGGGCTGACCTTTGGTCTAGAAGTCCTGGATCATAGCCCTCACAGATCTGGAGTACAGGATTTCTCTGGCACTTTTAACTGATGTAGGATTTAAGAGACTCTGGGCTTGGCGTATAGACCAGTCAGCCTGTTCCCTTTTCACAGTTGTCTGCAAGCCTACATGTCTTTGTTCCATAGAGAGCATGGGCTATAGAGTGATCTGATGTGAGGGCTATAGAGTGATCTGATGTGAGAGGCTTCAGTCTAACATACTTGAGTGAGCGAGAGCAGAGAGAGCATCAGAATCTAAGAATCATGGTGCACACAGACCAAGGGTAGAAAGATGCATAAATGTTCATGGCTTGGTGAGATGTTCAGACGAATGCTCCCTACATTCAAAGTCCAACCTAAGGCTTGTTTCCCCACCTCTGGCTTGCTCAAGTCTACATAGTTGATGGGAGGCTGTCAGGGTTGGACTTCAAGCCTGTTTATGATAGACCTTATGCTCTATTCGTTGCTTGGTCCATCACCCCCCTGCCCGACACTTTGGACATACTCTTCGTCATCTTTCTACCCTTTGCTCTGTGTTCTTTTTGTCTTTTGTTTCTATAG
Seq C2 exon
GCGTGGTTCCTGCTCTGCACAGTGGCTCTCCTGTCTGGACCATTCATTATGATTCATACCAACTTGAAGAAAAAGTTCAGCCTCTTCATCCTGGTCTTTCTCCTGTTCGCAGTCATCTGTGTTTGGAAGAAAGGGAGCGACTATGAGGCCCTTACACTGCAAGCCAAGGAATTCCAGATGCCCAAGAGCCAGGAGAAAGTGGCCATGGGGTCTGCTTCCCAGGTTGTGTTCTCAAACAGCAAGCAAGACCCTAAGGAAGACATTCCAATCCTCAGTTACCACAGGGTCACAGCCAAGGTCAAACCACAGCCTTCCTTCCAGGTGTGGGACAAGGACTCCACATACTCAAAACTTAACCCCAGGCTGCTGAAGATCTGGAGAAACTATCTGAACATGAACAAATATAAAGTATCCTACAAGGGACCGGGGCCAGGAGTCAAGTTCAGCGTAGAAGCACTGCGTTGCCACCTTCGAGACCATGTGAACGTGTCTATGATAGAGGCCACAGATTTTCCCTTCAACACCACTGAGTGGGAGGGTTACCTGCCCAAGGAGAACTTTAGAACCAAGGTTGGGCCTTGGCAAAGGTGTGCCGTCGTCTCTTCTGCAGGATCTCTGAAAAACTCCCAGCTTGGTCGAGAGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001823:ENSRNOT00000002496:2
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:
PF0077713=Glyco_transf_29=PU(27.8=36.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGCAATTGCTTTGACTCAT
R:
AAGGAAGGCTGTGGTTTGACC
Band lengths:
342-1155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]