RnoINT0144227 @ rn6
Intron Retention
Gene
ENSRNOG00000046984 | St6galnac6
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 6 [Source:RGD Symbol;Acc:1303196]
Coordinates
chr3:11633722-11636267:+
Coord C1 exon
chr3:11633722-11633901
Coord A exon
chr3:11633902-11635860
Coord C2 exon
chr3:11635861-11636267
Length
1959 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
TGTCCCTCCTTGTCCCACAGACG
3' ss Score
11.79
Exon sequences
Seq C1 exon
GAGCAGCGGTCAGCAGTGTTTGTGGTCCTCTTTGCTCTCATCACCATCCTCATCCTCTACAGCTCCAACAGTGCCAACGAGGTCTTCCACTACGGCTCCCTGCGGGGCCGCTCGCGGCGGCCAGTCAACCTCAAGAAGTGGAGTTTCTCCAACGCCTACTTCCCTATCCTCGGCAACAAG
Seq A exon
GTAGAGCAGCTCCTGTGGGGCGTTCCCTGACCGCTAATAGGCTCCACCTCCCAACTCTTCTTTCCAATACCCCTGTGCCTCCTAGAGGAGAGGGCGGATGAGGCCCATGAGTTAAGATCATGGCCCCTTACTCAGGGTGGGATCTTGGACAAGTGTTCTGTGGTAGGCCTTGGTTCTCTCTAGGGTCCTACCCTTAGTGTTAAAAAGTTTAATATCTTGGTCCAGTGAGATCATTCAGTACGTAAGGACAACCAGGGCTACACAGCTTCCCTGTCTCAAAACAAAAACAAATCAAAATAAAATTTGTCTTCTGAGTTAGACTTCTGGGACACATCCTCATAAGCTTGGGAGGAAACCACTGAGGTTCTGGAGAACACAAACTCAGGAACAATACTGGTTGCCTTGTGTTGAGTGATAGCTAGCCAGTGCTATTTTCTCCCTAGGAGAGATGAGGTGATCACAGGTAAAACCACAGGTGTGGGAGGGCCCCCGCTGAAGGGCAGCTACTCAGAAAGGTCAAGTGACTGGAGTCTAGTGGTTAGGGTTTAGCACTCTTACTCTATGGACCTGGTTTGTTAACCGATTATCAAGCCTGGGGACCTCTCTTTGCCAGGGAGGGTATCTGTGAGATTCATATATGCAGGCTGCCCTCCCTTGCTGAGTTTTCTTCAGAGTCTTTGTGTATCCAGTGGAGGGTTGGGCTCTGGGCACACCCTCCCTGGGAAAAGACCCGTAATAGATGTTAGGAGGATGGGAGAGAAGGGGAGAAAGTTGAACAGCTGAGTGCAGGTGGTTTGAAGATATCGAAGTCCGAGTTGGGCTTGTCACTTCTCCCAGTCTGCTGGTTAGAAGACTAGCTAAGGGAGTTGTGTCTCCAGGGGTTGGCGCTTGTTGGAGACGATGGAGAATGGCCTGGTGCATTTGGAGGAAGCGTCTGCACATGGCTGGCTTCCAGCCAGTCTGTCTTCTGTTCCTCAGCATGCTACCTGTGTCCTTGTGCTTGCTGGTCCTCTGGCCTGGAACAATTTCCCTAAGTGGCAACTTGTTCTTCAGATATGACGCTACAGACCGCTCTAAAGAAGTCCCAGTTCTTTGTTTCTGATCGTGTCCCCCATGTTTTTTCCTAGTGTATATTATGCTGTCTGTTTCCCCAATGTAAGCTTCTTTCTTGTTTTTTGTTTTTTTATTAGCATATATTAATTATATAATGGGTTTCAATTTTTGTTTCCTTATTGTTTTTTACTTTACAACCTGATCTCAGCTTCTGCTTCCTCTCTCCCAGTCCCTGTCACCTCCCCTCCCCATCTACCCCTTATGACTTTTTTTTTTAAAGATTTATTCATTTATTATATATAAGTACACTGTAGCTGTCTACAGACACACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGAGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAACCCTCTTATGACATTTTTATGATTCATATAGTTAATTTCAAACATCCTCCTCACTCCTCCCTTACCCTCTCTTCTTCAGTCTCTCCCTTCTTCAGCCCCTCCCCCGCCATCCATAAACTGCCCCAACGAGGGGTGTGACTTCTCTTTTTTTTTCTTCTTTTCTTCGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCACTCTACCACTGAGCTAAATCCCCAACCCCCAGGGGTGTGACTTCTAAAGCCTCTGCTGCTGTCTAAATGGCATATATATACCATGAGGGGAGGAACTGGCTGTGTTTGCTGTCCCTAGCTAGTTAATAATATCTGCAGAACCTAAATGAATGTGTTTTGAAAGGTTGCAACAGTCCCCGGCCTGGCTGTGTAGCACACAGGACCCTGCATAGAGCATCCCTGATGGTGTCCCTCCTTGTCCCACAG
Seq C2 exon
ACGCTGCCGTCCCGGTGCAACCAGTGTGTGATCGTCACCAGCTCCAGCCACCTGCTGGGCACCAAACTGGGCCCTGAGATTGAGCGGGCCGAGTGCACCATCCGCATGAACGATGCTCCCACCACTGGCTACTCGGCCGACGTCGGCAACAAAACCACCTTCCGCGTAGTGGCTCATTCCAGTGTGTTCCGGGTGCTGCGGAAGCCCCAGGAATTTGTCAACAGGACCCCTGAAACTGTGTTCATCTTCTGGGGCCCCCCAAACAAGATGCAGAAGCCCCAGGGCAGCCTCCTGCGCGTCATCCAGCGGGCGGGCCTTGCGTTCCCTAACATGGAGGCCTATGCCGTCTCTCAAGCCCGCATGCAGCAGTTTGACGACCTCTTCCGGGGTGAGACAGGCAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046984:ENSRNOT00000074401:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.051
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(16.1=73.3)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(49.3=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:
CGGCCAGTCAACCTCAAGAAG
R:
CTGGGGCTTCTGCATCTTGTT
Band lengths:
345-2304
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]