RnoINT0144228 @ rn6
Intron Retention
Gene
ENSRNOG00000046984 | St6galnac6
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:RGD Symbol;Acc:1303196]
Coordinates
chr3:11635861-11639443:+
Coord C1 exon
chr3:11635861-11636267
Coord A exon
chr3:11636268-11639335
Coord C2 exon
chr3:11639336-11639443
Length
3068 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGACTCTTCTCTGCCCCCAGGGA
3' ss Score
11.68
Exon sequences
Seq C1 exon
ACGCTGCCGTCCCGGTGCAACCAGTGTGTGATCGTCACCAGCTCCAGCCACCTGCTGGGCACCAAACTGGGCCCTGAGATTGAGCGGGCCGAGTGCACCATCCGCATGAACGATGCTCCCACCACTGGCTACTCGGCCGACGTCGGCAACAAAACCACCTTCCGCGTAGTGGCTCATTCCAGTGTGTTCCGGGTGCTGCGGAAGCCCCAGGAATTTGTCAACAGGACCCCTGAAACTGTGTTCATCTTCTGGGGCCCCCCAAACAAGATGCAGAAGCCCCAGGGCAGCCTCCTGCGCGTCATCCAGCGGGCGGGCCTTGCGTTCCCTAACATGGAGGCCTATGCCGTCTCTCAAGCCCGCATGCAGCAGTTTGACGACCTCTTCCGGGGTGAGACAGGCAAGGACAG
Seq A exon
GTACCAGCCTCCCGCCTGCCCACTGCGGTCATCCCTGGCCTGATGCCTAGCATGCACTGTTGAGGCAATGTAGTCACTTCATTGTCATCCTCTCTGATAAGGTTCCCCCAGCTCTCATCAGCTCTTAACGTGGGTCATCTTCAGAGTGTTGGCCATGGCCTCAGCCGACTACCACCCCAGGCTTTTTCCCAGCCTGCTCCACTCTAAGAGAACAGGGGCTCCCAGAATGCCGCGTGTTAAAACCATTCCTAGCATTTTTCTAAGTCTTTGGTTCTCAGTCTTCCTAATGTTGCAGCCTTTTAATATGTGTTGTGGTGACCCCTCCCCCCAGCCATAAGATTATTTTTGTTGCTACTTAATAACTGTAACTTTATTACTGTCATGAATCACAATGGAAACATCTGACCTGTGAGGTCATTTGACACCAAACAAGTCATGACCCACCGGTTGAGAACCACTATTTCAGTGTCACTTCCCATAGTACAGCACTTAATGTAGAGTCTAGACTCAACTACTCCCAGCATGCCTTGCTTCAAGCATACAACTCTCCTAGCATGCTGTCCTCTGACCCACCCCTAGAAGCCTAGTCGTCCCTTCTATATAAATACAATGTGGACCACACGTAATTTATAGTTTTATGGTAGCTATGTAAAAAAGTAGACGAAAATAACAACGGTGCATTTCACTTTAGTGTTATTTTAAGATATGTGGAACATACAGCTTGTCTACTTACGGTGGTAGGTTTATACATTTCAGAAAAACATGTGCATGAGCCTTTGCCTGCGTGTGTCTCTGCGCCACATGTGCATTCAGGGCCTCAGGAGGTCGGAAAAGGGGTTCCAGCTCCTGGAGCTGGAGTTCCAGGCAGCTGTGAGATGTGGGTGCTGGAAAGTGATCCCTGCTTCTCCGGAAGAGAAGTGAGTGCTCGTAACCACTGAACCATCCTTCCAGCCACCTTTATTTTATTTTATTTTTTTTTTGGAGCTGGGGACCGAACCCAGGGCCTTGAGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCTCCAGCCCCCTTTATACCTCATTATTTTTTAAAAGATTTGAAGCTATTACAAGTGGTAACTTTTTCACTTTTATTTCTAGCTCACAGTTATTCATCGTTAGTTTATTTTTCCTGTGTGTGTTAGGTGTGTTTGCGTGTGTTGATGGGTGTGTCCCAGTGTGCAGGCATTCATGAGCACACATGTATGGAGAGTCCCCAGGTTGAGGTCAGATATTCTCCTGGATCACTCTGTTTTATATACTGAGGCAGATGCTCTCCCTTGAACCCAGAGCTCATTGATCTGACCAGGCTGGCAAGCCAGTGCTCTCTAGGTATCCCTCGTGTCCCCCACTGGGCACTTGAGTTAGAGATGGGCACTGTGTCTGAGATTTAGGTGGGTGCTGGAGGTCTGATGACCTAGCATCCCCTCCCCAGTCTATTGCTAGTAAAAAAAAAAAAAAAAAAAAATTATTTTTTTGTTGACTCAGTAGTTCTAGATTTTTGTAGATTTTCTTGTAGTGTTTTTCACACATTCATAATCATGCTCTATGCAAATCCAGTTTCCTTTCTTCCTTCCTACTTTCTGCCTCTTCCTTTCTCCTGCCCATTGCACCGGCTAGGGTGTGTGTGCTGGTTGTCCTTAGTTGTTCTTTCTAGGTTTAAATATGGGGTCGATGAAAAGTGTTCTGCCCTGTTTTGTGGGTGAGATTGCTCAGAACCCGATTTTCTTTAAGTCTTGGGTAGAGTTCGCCGGTGAAACTGTCTGGACCTGAAGCGTCCTGTCCCTTTCTAGGAGATGTTTACTTTAGTTGTTTTAGTTTTTAGTTCTAGGGGTGGGAGTCAGGGCCCAAAGAATTCTAAGCCCACATTCAGCCATTAGAGCTGTGTCCCCAGGATTACTGGCTCAGCGTCTTTAATGTCCCAGCTGTAGAAGGTGCAGGCAGCCTTTTTCATCTCAGGTAGTTCACAGGTTTGAAGGAGCTGGCCCTTTTCAGGTAGGATGTCAGATTGATATAAGTAGTCGTCTATGGACGCCTCCTTCAGCATCCGTAAGGGAATGTAGCCATTTCTGTTATCCCTGTCTTTGGCAACTCTTGTCACCTTTGTTTTCTTTGTCAGACTTGTCAGAAGTGCAGTTTCCTTTCAGATGTTTCAAAGAGCCATCAAACACACGCAAACCATTTTCAGTTTGAGGTGTAAGGTGGAGAGATGGTTCAGTGGTCAGGGGCGCCTGCACTCTTCCAGAGGACCTGAGCTTGGTTTCCAGCACCCACATCAGGACAGACAGCTCACAGCCACCTGTGACTCCAGTTCCAGGTGATCCCATGCCCTCCGCTGGCCCCTGCGAGCACTGCATTCATATGGTGTCTGCACACAGACATACACAAGGCCTAAATATATATGCAAAATTTGAGGTATAAAATTTCAAGGACAGCCAGGGCTACATAGAGAGACCCTGTCTTAAAATAAATGACTAAAATAGAAAATAAAACAACAAATATATGTGTATACACACACACATACATACATACATACATACATGCATACATACATCATGGAAAGATGTGATCGATATTAAAACATCATAAATGATATATTCTGCTTTTCACACCACCCAAGGACTTCAGTGCGCACTTGACCTAGCACGGCTCAGACACATATCAAGTGCTTCCTTCCTAAGCCACCGTAGCCGGTGGCTGCTGTAACCCCAGGGCCTGGGCTGTTCTCCATGCCTCACTCTCTCCTGCATTCTCTGACTAGGATCCACATAGGAGTTTGGTCCCAGGGGAGGAACAGCTGATGCTAACACACTTTATGGTCGCAGTTACTCCCGGCCTGCCCGTTTAATTGGCCTCTCGAGTTCATGCCCTGTTTCCATTGTACCCTTCCCTTTGTGCCCCCTCAGTGGGTGTTACACAGGTGTCTGATAGAGAAGCAGAGCCTGGATAGACAGTGGGTAGAGCTGGGAACCTCTGTGGGGTTGACTGTCCTCCTTGCCTGCTTGTCCCTTCATTGTGACTCTTCTCTGCCCCCAG
Seq C2 exon
GGAAAAGTCCCACTCGTGGTTGAGCACAGGCTGGTTTACCATGGTGATTGCGGTGGAGTTGTGTGACCATGTGCACGTGTATGGCATGGTCCCTCCCGACTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046984:ENSRNOT00000074401:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(49.3=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(13.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]