RnoINT0144225 @ rn6
Intron Retention
Gene
ENSRNOG00000046984 | St6galnac6
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:RGD Symbol;Acc:1303196]
Coordinates
chr3:11629556-11630867:+
Coord C1 exon
chr3:11629556-11629770
Coord A exon
chr3:11629771-11630776
Coord C2 exon
chr3:11630777-11630867
Length
1006 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
CCCTTTCTGGTGGCTTGCAGGTG
3' ss Score
10.81
Exon sequences
Seq C1 exon
CAAGAGTTACCAGTTCTTATTCCCATTTCACAGATGAGGAAACTGAGGCTCAGAGAGTCACATGGCTTGCTCGAGGCCCCCCAGCAGTAAGTGTGGACCCGACATTCGCACTGGCACCTGATATGCTGTTCTGACCATGGCGTTCTCAGAGCAGGACCGTGACGGGGCTGACCAGGGGGACCGTAGTCCTGGCTGAGGGCACTGCTCAGGCAAAG
Seq A exon
GTGGGAAAGTGGGGCGTGGGCCTGGAGCCTGGCGTGCTCCAAGTGTCTGGAGCATGGGGCATGCGCAAGACAGGGTAGTAAGACCGAGGTCTGTCTGGGAGCTGTAGCCAGACCCAGGGACGCTTTGAATACTAGAGGCTGCGGGGTTAATGGGGGCGACTCTGGGATTCTGGATCTGGCCTCCTGTCTTCAGTCCTAACGTTTGAGTCCAAGGACAAGCCACGCCTCCCTTCCAATAAGCCTGTTTCCTGAACTGCCTGGTGGGGACAGACAGACATCTGGGGTCTCTGTGACTGGAGATACTGGGATGGCCCAGGAGAACCTTAAATCCTGAGTGTGGAAGTCTGAGCTGCCAAGGGGCGGGGTCATGCCTGGCAATGGGAGGGGCCTGGCCTGGCCAATCAGGAGCCGGGTGAGTCTGTGGCACTCTGGCCTAGAGGTTTCTAGCTATTCCTGGAGTGGGAGTGGACGGCAGCTAGGTCAAGGGGCGGAGATAGTGACAGGAGAAGCTCCCCGGGGAGCGCCCTGATCTGGGGATCCCCTCCGAGGATCCAGGCCTAGTTTTCTTCCTCTCTACGCGCTTTCCTATTTTTGCGTTTTGGGCTGTAGCTGCTAGAGGAGGTGGGGCTGGATGCCCAGTTACAGTCAGCTTACAGGTGGGGGCTTGGAAGTGTAGAAGGGCCAGGCCCAGTGGTGGGAGGAGAGGGAGGGTTATGGAGTGAGGCACACAGCTGTCCACCTCTGAGAATCATGGCTGTGCCCTTGACCCCAAGATCACATTGGCCAATGACTGAATTCACTGAGCCATAGGATTTGGAGGTCTGTGAGGAGGGGGTCAATACCTAGGAAACTTTTGGACCATCCCTGCTTGAAGTGGGAACCAGGACCAAACAGAAGCAGCCCCGAGCCTCAAACTTTGGGAGAGCTGTTGGGTAGAGGCACGACCTGAGATCCAGCCGCATCCAGGGGAGGGCCTCCGGCCATAACCCTTTCTGGTGGCTTGCAG
Seq C2 exon
GTGTGACCCCACAACCTTGCCCCCCGGGCCACCTGCAGGACGCTGGCCTCTACCCTTCAGCAGACGCCGCCGAGAGATGAGTAGCAACAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046984:ENSRNOT00000074401:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.600
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
CAAGAGTTACCAGTTCTTATTCCCA
R:
GTTGCTACTCATCTCTCGGCG
Band lengths:
303-1309
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]