RnoINT0144221 @ rn6
Intron Retention
Gene
ENSRNOG00000048870 | St6galnac4
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4 [Source:RGD Symbol;Acc:1303005]
Coordinates
chr3:11614487-11616309:+
Coord C1 exon
chr3:11614487-11614899
Coord A exon
chr3:11614900-11616201
Coord C2 exon
chr3:11616202-11616309
Length
1302 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
CCGTGTCTCATCCTCCTCAGGAG
3' ss Score
8.53
Exon sequences
Seq C1 exon
CCGCTTACCCGAGAACTGTGCCACAGCTGTGCGGTGGTGTCCAGCTCTGGCCAGATGCTGGGTTCGGGCCTGGGTGCTCAGATCGATGGTGCGGAGTGCGTGCTCCGCATGAACCAGGCACCCACTGTGGGCTTTGAGGAGGACGTGGGCCAGCGCAGCACTCTGCGCGTGATCTCGCACACGAGTGTGCCGTTACTGCTGCGTAACTACTCACACTATTTCCAGCATGCCCGAGACACGCTCTACGTGGTGTGGGGCCAGGGCAGGCACATGGACCGGATGCTGGGCGGCCGCACCTACCGCACATTGCTTCAGCTCACCAGAATGTACCCAGGCCTGCAAGTGTACACCTTCACTGAGCGCATGATGGCCTACTGCGACCAGATCTTCCAAGATGAGACGGGCAAGAACCG
Seq A exon
GTGAGCTGGGGACCCCTGGCATCTGGAGCTTGCCTTCTCTGAAAGCCTTTTTCTGCTAGAAGCACTTTAAGGTCTGAGGTAGTCTCTGAGGTCCATTCCAGATAACCGAAGTAAGAGTTACTTCCGGCTGGGCATGTGGCTCTTTCGGCAGAATGGTTGCCTAGCATGCATGAGGCCCTGGGTTCCATCCCCAGCACTGGATGAACTGGCCTTGTACACCTCTATAATCCCATCACTCAGGAGGTAGAGGCAGGATGGTTAGGAGTTCAAGGTTATCTTGAGCTTCTTAGGGAGTTCAGTTCGGTTAAGCTTGGACCATGCAAGCCTGTCTCAAAAATGAGCAAGAAGACGAAAAACAAAACAAAACAAAAAATCCCAACTGTCTTTGGGACTAAGGCTCTAAGCTGTATCACACATCTCTAATCCCTCAGGACATCCCAAACCACTTCACCTCCATACCTGTGCCGTGTCCCTCATCCTCAGATGTTCAGACTTGTCCCCGGCTGCAGTCCCTTGCACATGCTCTGTTCTTTCTGCCTAAAACATTCTTCCAAAAGTTCCCGTGATTGGCCCCTTCTGACCGCTCTGGTCTGGACTATCACTTCCTCAGGGAAGCTCTCCCTGACCATCCCCTCTGCAGAAGTGGTCCACCCCGGTGGCCTGCATCCCACACCTTTCCCAGTCTTTTTAGCTGCTGACAGCATCTGACGTTGCTCTGTTTATGTTTCCTCCATGAAAGTGTTAGCTCCAGGCGGGGCAGGTGCTGGCTGTGCTCCTCGTTAATGGGTGAATGGGTGAGCCGGCCTGTGCTCTCAGGAGAGGCAGAGGGGGTGACCTTCTGCTTGGAGGGTACCCAGAGCTGCCGCCTCAAGAGAGCTGAGGCCTGGGGCTGTCCCAGCACCTTTACCCCAGTGGACTGGGGGTGGGCAAGGCTGACAGGGCTCCTTCCCCAAAACCACCTTCAAATCTCCACATTTCACTGAAGCTGAGAGTCTCAAGGGTGAGTTGGGTGCTCTATGGGAGAGACAGGGCTAAAATAGAAGACCGCTCCCTCAATTTTACCCACCGGCTCTCTTGCACCTGTGGGCTCCCCAGGTTGAGTTCTCCAAAGCCCTGATGTCATCCCCGGCTCTGGCAGCAAGACTGAATAGGCCTACGTTTGTGTCCAACTCCACCTCTGAACCCCTGCCGATGGCACGCTACCTCTCTGCCGATTCCCATCCTCCTCAGGACCCCTTTCTAGTTGTCACATGGGGGTAGGGGATGTTGGCGGGGCCACTGACCGTGTCTCATCCTCCTCAG
Seq C2 exon
GAGACAATCAGGCTCCTTCCTTAGCACCGGTTGGTTCACCATGATTCTGGCCCTGGAGCTGTGCGAGGAGATCGTGGTCTACGGGATGGTCAGTGATAGCTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048870:ENSRNOT00000072685:4
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=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=FE(56.4=100)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(14.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTGGGCTTTGAGGAGGA
R:
GGGCCAGAATCATGGTGAACC
Band lengths:
344-1646
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]