RnoINT0144229 @ rn6
Intron Retention
Gene
ENSRNOG00000046984 | St6galnac6
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:RGD Symbol;Acc:1303196]
Coordinates
chr3:11639336-11641466:+
Coord C1 exon
chr3:11639336-11639443
Coord A exon
chr3:11639444-11640067
Coord C2 exon
chr3:11640068-11641466
Length
624 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTGCGTTTGCTATGCCCAGCCA
3' ss Score
3.15
Exon sequences
Seq C1 exon
GGAAAAGTCCCACTCGTGGTTGAGCACAGGCTGGTTTACCATGGTGATTGCGGTGGAGTTGTGTGACCATGTGCACGTGTATGGCATGGTCCCTCCCGACTACTGCAG
Seq A exon
GTGAGCTCCCCTGGCCACTGCCCCCTGGGGGACCATGGCCAGTTCCTGACTACAGGGTGGAGCTGGGAGGTTTGGAGACATTGCTGGGGTACCTCCGAGGACCTCTGTGGGGTGGTATTCATGCTGATCTGCAGAGGTGGACTTCTTGGAGCTGCCCCAGGGGCTTCCACTCCAAGCTGAGTCTTGAGTTTGTTGGTAATGACTTGATGAAAAGCCGTGGAGTGCCAGCCATGTCCTGCTGAGTGCTGACCATGCACCCAGCATCATCTCCTGCCTCATTAGTGTTCACACAATGCTGGGGCACCATCTTCCCCATTTCCTGAGTGCAAACGAATCGAGAAGGGTATTTAATGAGGGGACCTATGGTCTCAGAAACTGTCGTGGGTACTAGGCTTCCCAGCCCAGACCCACAGTTCTTAACCACTGCCTTGCCCGCAGCCCCGACTGCTGCTCTGTAGGGAAAAGAAAAAGGTTACATTTTGTTTAAGAGAAGCCTGATGGTTCGGCAAACCTAATCTATACACACGCCTGAGGCTCTGTAGCAGATGAGGGGGGAAATAGAGAAACCCCTTACAGGCATCTAACTTGCACTCATGTCCCTGATTCTGCGTTTGCTATGCCCAG
Seq C2 exon
CCAGCGGCCCCGCCTGCAGCGGATGCCGTACCACTACTATGAACCCAAGGGGCCAGATGAATGTGTCACCTACATCCAGAACGAGCACAGCCGTAAGGGCAATCACCACCGCTTCATCACTGAGAAGAGGGTCTTCTCATCCTGGGCTCAACTCTACGGTATCACCTTCTCCCACCCCTCCTGGACCTAACCATCCTGTCCACAGACCTCGGACAGATACAAGTGAAGTGGCTCTGGGCCCAGCCATTTGACCACGGCCATCTTCCAGCCAGTTCAGACTGGCTGGAGTATTTCCCAGCCAATCAAATCAGGGCCTTGATGAGGGTTTTTTCCTCCAGCCAACTGGGGCTGGGGTTATCTCTTGGCCAATCAGGGATTTGGAATTCTGTATGGATTAATCGGGTGTCGGGGTCTTTCTCGTCTAGTCAGGGTCTGAGTGTAATCTATCAGGGTATAGGGGTCTTTCTGAGTCAGTCTGAAGCTTAGGACATGTCTTTACCAATAAGGTTTTGCTTCAGAGCCCCAGGAATGGGTCCCCAAATCACTCCCTCCTTAGCTGGGACAATGAGGTCCCTGTCCTAAGGATCTGGGGACTTGGTGTTGCCCCACAGTTGCCAGAATCAGCTGTACTGTATCAGGGAGAAGCTGCGAGGAGGCCAGGCCCGAGAATCTGTGGAGTTCTAGGAATGGTAGGGAGGCCCAGGGAGTAGGAGACGGCGTCCCGCTCTGGTTTCTTCCTGAGTGATCTTGGACAGGCTCTCTTGTCTTTCTGGCACGCTGTGGTGACAGATCTCGGTGTGCAGACAGAGACCCTCACTCTCCATTATATGTAAGTGTGAATTCCCCAACTTCCATTCCTCCCTGGGGACTCAGCTCCCTGGGGATGGGGAGCCTGGGGTACCCTTCCCTGCCTCCTTCTAGAAACTTTAGGGTATTTTTGTGCAAGTACCCTGACAGAAATGGGGCAAACATGAAGTTGTTTTCCTAACCCCTCAGTCCAGCTGCCATTAACCTGGCTCTAGAAAAGCCAGGATCTCTTCCTACCCTCCTACTGGAGAGTGTTCCCTACTGTCCAAAGGAGCTTTTGGGGCCGAGGAAGGGATAATCCCAGCCACCCCAGGGCTTTGTCTGGAGATGTTGAGGACTTTGGGGAGAAGGATCTTTCCCCCAAGTTTGGGATGAGAATAGAGATGGGGGCTGGGTTCTGTTCCTCGCTTAAGCACTTTATTAAGGGCGGGACTGTGTAGGGTGTAAAGAGGCTGTGGACTGGGGGTTGGGAGAGACTGGCCAGCAGTGAGCCCTTCCACACCGAGGTAATGGGTGGGGAGGGCAGTGACAGCCCCAGATCTGGTTTTGTAATGATTTATACAGAAATAAACATGCCTAAGCCCCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046984:ENSRNOT00000074401:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.063
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(13.1=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=PD(20.8=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTACCATGGTGATTGCGGTGG
R:
CTGAACTGGCTGGAAGATGGC
Band lengths:
350-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]