RnoINT0144223 @ rn6
Intron Retention
Gene
ENSRNOG00000049676 | St6galnac5
Description
ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 5 [Source:RGD Symbol;Acc:1564252]
Coordinates
chr2:258045847-258052835:-
Coord C1 exon
chr2:258052423-258052835
Coord A exon
chr2:258045955-258052422
Coord C2 exon
chr2:258045847-258045954
Length
6468 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTCACCCTTGTTCCTTCCAGGAA
3' ss Score
10.83
Exon sequences
Seq C1 exon
CAGCCCTTGAAAATGCATTGCAAGGATTGCGCCCTGGTGACCAGCTCGGGGCACCTGCTGCGTAGTCAGCAGGGCCCCCACATCGACCAGACAGAGTGTGTTATCCGTATGAATGACGCCCCCACCCGAGGCTACGGGCTTGACGTGGGCAACCGCACAAGCCTGCGAGTCATCGCACATTCCAGCATCCAGAGGATCCTCCGCAACCGCCATGACCTGCTCAACGTGAGCCAGGGCACCGTGTTCATCTTCTGGGGCCCCAGCAGCTACATGCGGCGGGATGGCAAGGGCCAGGTGTACAATAACCTGCAGCTCCTCAGCCAAGTGCTGCCGCGGCTGAAGGCCTTCATGATCACGCGCCACAAGATGCTGCAGTTCGATGAGCTCTTCAAGCAGGAGACTGGCAAAGACAG
Seq A exon
GTACAGGGCACAGGCGGGAAGCAGGGGGCAGCGGTGGGGATGTGTGCTGGGGACGGACTTGGGACAAGCCAAAGCTGAGGGTCTGTGTTGGTGAGCTCGTGGCTCATGTGATAGATAGATAAAGAGAGAGAGAATGTGCACACACATGAGCACACACACAGAGACAGAAACATGCACACAGAGACAGAGAGAAAGAGAGAGAGAGAATGTGCACACACATGAGCACACACACAGAGACAGACACACACACAGAGAGACAGAGTCAGACACACACAGAGACAGACAGACAGACAGACACACACACAGAGAGAGAGAGAATGTGCACACACATGAGCACATACACAGAGACAGAGACACACACGCACAGAGACAGAGTCAGACACACACACAGAGACAGAAAGACAGACAGACACACACACACACACAGAGAAAGAGAGAGAGAGAGAGAGAGATATTTTTCCCTTTCAAAGATACCCAGTCATGGTCAACTGCCCATCACTGAAAACCTACAACTTGGTCAGTACTGTACCGTGCTGTGTCTCTCAGGACAGTCAAAAGCAAGAGTCCACCCTCCAGTCCATACATTCTTAGACATTCACCAAGCAGTGACAGAGAGAAGACGGAGCTGTAACTTATATAGCAGGAGACAAACCACGGTCTAGAGCCATGTTTTCCAAAGTGCTCATCAAGAGTAGATAACGGGGTGGGGAGACTGCTCCACGGTTGAGAGCATTGAGAGCACTGGCTGCGCTGGCAGGACCTGGGTTCAGTTTGTACACAGTGGCTTACAACCCTCTGTAACTCTAGCACGAGGGGGTGTAACACTCTTCTTGGCTCTTTGGGCACCAGGCCTGCACATGGTGCATACACATACATGTAAGCAAAGCACACATGCACATAAAGTAGACATTTGTGGAGATTTGATGATAGGGCGTGAAGTCAGTGTATTCAGGAGGATTCTTCAGTAATGGCGCCTGTCTGAGAATAAAACAACATACCAATTCAGAACTTTTCACGTGATGATGATGACGAATGCATGTGTGGATGAGCAGACACGGGATAGTTTGCTTAGATGTGAAAATGTTCTAAAGTGAATAGTAAGGGTTGTAACTGTGAACACCTTAAGATCCACTGCATTGCATGCTCTAAAAGTGAAATGAAACACACACACACACACACACACACACACACACACACACACACACCTGAATGAAGTTATTGTCCTAGTGTATTTCTCACTATAAGTTGCAGATTTTTGAAAAAAAAAATCTGTGGTCAAAAGACTTTCTCCCAAAGATAGTTCCGACTGAGACCCTGGACAGTATTTCTACAAGTATGGAAAGATCTGGGAGGGATAGAAGTCCTCCCAAGGGACCAAAGGACCAGGGAGAGGGTATGCTGGGGGAACTGTAGAAAGGTGCCCTGTGGGTACATTGAGGACATCTGAGCATGTGGCATAAGTAAGGTCGAAAGGGAAAAGGATCATGAACTGAACGGAGCCGGAAGCCTCAGAGGGGTGGCCTGGACACACAGCTCTGGGCTGGAACGTCAGCCATGTCCTTAGAGACTCGATGACCTCACACTTCTGTGGAAGTAAGGGACAGCGACTACGGATCATCAGTCTGATGTCATAATTAATTTCTAAAGCATATACTGTTATAATTGACGTACACTTAGTGGTCTAATGCACTTCCTATGAAGAACTGTTACTCGGTGTCTTATCTTAACTCTAAAGAGATTTGTTAGGTAAAATAAAGGCCAGAAAGTACCTAACCTACTATTTGGCTAGCTTAGGAACACATGATTGGGAAGCGAAGTCCAGTGTCCCCAAATCCTTTGGACAAAAGAGCTGTGTTTTTCAACCTTGGGAACTTTACAGCAGTTTGAGGGCTCCGCCTGACATTAGTGGGCCCTAGGAAGGAAGCAGCACTTCTGTCCACACTGCGGCAGCCTCTTTCCTGGGAAGACACAACAGAACTGTGGCTACCACAGTCCAGACCCATGCCTACCAGCTTAGTGGGTCTACAGCTTGACTAGAAGAGCTGGAGTTAGACAAACACACCCATGACTAGTCCATCGCACTCACGGATAGCAAAGTCCACACTTATGGCTAGCTAACAGACCCAAGGCTAGCCCAACAATCCTACAAACTAGCAAAGCCCAGATCTGTGGCTAACCTAGTCAATCTCTAACCCAGCCGTGGATCAGGTCACAGGGACACATGGTCAACCCTGTGACAGCAACGGGAAGGAGCCCTGAATGTTTACAGGTTCTTTCACCAAGAACACATTTTATACGGGATGGACAAACAAGGAGCCATTTACAATTAAATGTTGCTGCTCAGAAATTCCAAAAAAAAAACCTTTAAACCATCTGAACCATAGAGAATGCACTCTCTCCTTTTTGTTTAATGATTGTTCATTAAAAGTAAGTCTTCCCAAAACCCTGGTGCAGGGTTCACAAAGACAACTGCACACTCCTCCTGCACCTCCGCAGGGGCCTGGAGACTAAGCCATCCCACCCTTTGACCACTCGAGATCCCCAAGGAACAGTCTCACACAAGGCATCTCTTAGCCCCTCCCTTAGTCTGACCAATGAAAGCCATCTGCTCAGAGCATCTTTATTAGTCCGGCTGCAGGAAGTGAGCCAAGCCTTTGCGGCTGAGCTCTTGGGCCTCTTTCTGCACATGCACCTCAATTATCACCCACTCTGCCCTGCTTGGGCAATCTCACCTATGACCTTGGAGCACGCCAACACTTATCAACCCTTCCGAGGGGACCTTGCATCTCTTACCTTAGGAGGTTGTCTTTAAAGAGCTGGCCTGATATTGACTCAGTGTTCTTACTCATCCTTATTCTTAGACTGAGAGACAGAAACAACCTTCCAGAACAGATTTCCATTTGACGGAAACCCGGAACATTTGGGTTGAAAAATATTCCTTGTGTGTAAGCAGGGAAAATCCAACAATACGAGCGCATATGTTGAAGGCACATAAAGAGTTGGATTTCTATCCAAACCAAACTTGTCACTGGAACATTTGGCTCAGGATAATATTTTTTAAGAAATGGGCCAAGTCGGGAGATTTTGATTTATAGCAAATTTTGCCCTTAAAAGCAGGGATGAACATGGCTCGTGGACACTCTGCAATTAAGAAGCAGGGCAGATGACAGGGATGGCCAAATCACGTTCTTTGATATTAGAAAGTAACTGTACTTGAAAATAACTTTATAATTGAATAAGGGCACATTAGGAAAATATGATTCAGAACCAATATTATAGTAATTACATAAAGGAAGCATAAATGAAATAACTGCAGGAAGAATATTCCACTGAGATTATAAATGAGATTCTGGCAGAGCAGAAAGGCCTTTAATTGTAATTTAGTGTGCACTATGGCGTTATCAGCCCAGTGTGTTACTTCATCATATAAAAGAATATCTGCTAATTTTCTCTAATAAGCACATGACAGCTCTTCATATTCTCTCATTACAGCTGATTAACTGTAAAAACAGTAGATATTCCTTTGTTGGAGAAAAAGAAAAGAGTTCTGATCCTTTCAGGCAGACAGAACAAAGCAGTTGCGTTCCTGTTGTGCGTGATCCGAGGACTATTATTTAGGAAGTCTGGGGAATTTTAAGTGGCACTTACAAGAGCACCTCGCTTCAGTTCCTCCAGTCCTCCACTTTGTATTCTTCCCGCCTCTACCTGCAGAGCCACTTCCTGTGGCTCCACTTCCTCCTGTGTTCTAGGCTGTGGCATCGCAGGCAAAGAAGACCTGGTTGGTGTTTCCTGGAAATGGAAACCAGAAGATATGGTGGGACCATTGATTCCCAGATCACTCAGGGATCTCTGTGAGGGCTGTGTTTTTCTTAGGCTCCGTCAGACTAGTCTGGGAAGAACTGCCAGTACATTAACACAGCGGAGGTGTGAGCACGGCCCCCGTTAATGAAGGCTTTTCCTCCTCTTCCCTTCTCATTCAGTTGGCTCTGATCCTTCCCAACCCCTCTAGCCCCAAGCCTTATGAAAGTGAGAGGGAAGGGATATAGTAATACCTACAAAAGCCAGAAGCTTCTGTACTTTATAAATGCTGCCCTGGCTACTGATGCACCTCCTCCATCAGACCAAGCACCTGATGCCCCTCCTCCATCAGACCCAGCACCTGATGCCCCTCCTCCATCAGACCCCAGTGCCAGAGGGTTGGAAGGATTTTCTTCCTGGGTACTAAACAGCACTGAAGTAAATAAATGCTAAATTATTTACCTTGTTCACCACCCTAGCACCCAGGAGAGAATAAAGGGATCTCTATGGATCACCAACAGCACCTCCCCCATCCCTTTCGTGGATATTTTCTGATGTTTTCAAGTGACCAGAGGACAGAGCATGTAGTATCTACTTTGTAGATAGGAGACTGCGGCTCAGAGATCAGCAGCAACCCGCCTCAGATTATCCAGCTTCGTGTGACAGAAACAGGAGAGTGTCGAACTCTCAGTACCCTCATCTGCAGGGGCTTTGAGAAGCTTGGTCAGGAAGCTGTGGAGTGGAGGGAGACATATTAAAGGCTTAAGACTCAAACTTGAAACTGAAACCCACCCATGTCTGTCAGGATGTCGACAAGGCAAAAGCCTCCTTTAAAATATTCCCTATCCCTGCATGAAGGGGAATGAAGCAAACTGTTTAAGTCTTCCTTCTCAAAGTGTGGAGATCTACAGTGCATCTCTACTGCTCTGCTATTCACCTCACACACAGCTCTGTGGCTGGGCAAAGTCAGACAGTCTGACCTTGGGGATAAGGTGTTTGGAGCTGGCTAATGAGGCATGCCATGGCACTGGAGAAAGAAAAGGCAGCAATCCCAGGAGAACTGAAATTAACACCCACAGCAGTGGAGCATGGAGACCAGTGAGTCATTCTCAGGACTCAAATCAGACCTTGCCGATGTGTCTCCACTGGTCTCCTGGGGCTGGGCGGCTTGTGCAGCCTCCACTCAGAGGTCTGAAGAATGGACATGTTAATGAATGGCAGAATGCACAGATGCATTTCCTTAAACTTGTCGGTTTGAGACTCAGACATTTCAGAAAGCTCTGAATGACCTTAGGGAAGGAAAAAGTAAAGGCTTTATTAGATGCAAGCATCCCTCTGGCTCTCTTCCTCCGCTCCTCCCAAACACATGTGCTCCTCCTAAGAAAAGAAATTCAGTCAGACGCTGGTGTTCTTAATGTGCTTTGAGACCTCTCACCTATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGACAGTTGGACAGATACATATATACATACATAATAAATGTATGAATGTCTAGAAAGATGATAGATTAATGATTAATAAGGAATAGATGGTAATATACTGATGACAGAATGCAATTGATTAATGATAGATAAGTAACAAATGATGGTGATAAATATGAGAAGATAGATGTGTTAGATACATGTATACACACACTGCATATGTGCATGCATATATATGCATACATGCACACATACACATACATGTATACACACATGCATACATACATGTATAGATGATAGATAAGTGGGTAGATTAATAGATAGATGAAAAAGAGGTAGCAAGACCTAAATGTTTATCCATAAATTATTTGTAATTCAGCTTGTTTAGGGACACAGGGAGAGTTTCTAGTCAAACATTCTCATTAATAACCAATGGCCACATGGATATTGTTGTCATCTTATAGCTGAGCTATGGCAACACACACCTAAGCATTCAAATAATGATTATCTTTAATGTTGTAGAAATCCCTTAAGCATCAACATTAGTTCTGAATGTACTAGAAGAGATTTTGGTTTAGCAAAATTCTAATGTTTACCAAATGGGAGAGAGTGAGATAAAGTGCATGTATGAGTGTTTGCCTATGTGCCTGAGTGCATGTATGTACACACATGTGAATGTGTGTGGGTATATGTGGATATGTGTGTGTTTATGTGCATGTATGCATGCATATTGCATGTGGGGTGCACATGTGAGTGCATATGTGCATGTGTATACATATGTGTGCATGTGTTTGCATATGTCTATATATGTGCATATGTGTGTGTGTACACGTGTGTGCATGTGGGGTGCACTGTGTTGGTGTGTTTGGGTATGTGGGTGGTGTGCATATGTGCATGTGTATGTACATATGTATATGTGTGCATATGTGCATGTACATATGTATATGTACACATATGTGCATGTGGGTGCACTGTTTGGGTGTGTGTATATGAGTGCATGCATATATGCATGTATGAGCATATGTGCATGTGTGTGCATATGTGCATGTGTGAGCATATGTGCATGTGTGAGCATATGTGCATGTGTGTGCATATGTGCATGTGTGAGTTAGGGGTGGGGGTATTTGTTTATAGTCAGCTCCAGCATGGTTATGAACCTCGGACTGCTTCACCAGAGTGCAGACTTCACCCTTGTTCCTTCCAG
Seq C2 exon
GAAGATCTCCAACACTTGGCTGAGCACTGGCTGGTTCACCATGACAATTGCTCTGGAGCTCTGTGACAGGATCGATGTTTACGGCATGGTGCCCCCAGACTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049676:ENSRNOT00000072899:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0077713=Glyco_transf_29=PU(59.1=99.3)
A:
NA
C2:
PF0077713=Glyco_transf_29=FE(15.5=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:
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]