RnoINT0065711 @ rn6
Intron Retention
Gene
ENSRNOG00000027900 | Glt6d1
Description
glycosyltransferase 6 domain containing 1 [Source:RGD Symbol;Acc:1311348]
Coordinates
chr3:3255638-3257037:-
Coord C1 exon
chr3:3256900-3257037
Coord A exon
chr3:3256507-3256899
Coord C2 exon
chr3:3255638-3256506
Length
393 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAC
5' ss Score
6.89
3' ss Seq
CTTGTTTTGTGTGTTCCCAGTTT
3' ss Score
8.61
Exon sequences
Seq C1 exon
GAGACGCTTGGATGTTATCACGACCACAGACTGGCTGGCCCCTGTCATATGGGAAGGCACCTTTGACAGAAAGGTCCTGGAGAAATATTACCATAAGCAGAACATCACCATGGGCTTGACTGTGTTTGCTGTCAGCAG
Seq A exon
GTAGACGCTGTGAGGTGCTTCCTCTTTTATTTTGGGAAATGTGCTTCAGCATGCATTGATGTCTTGACCCCACAGAGCAGCACGTCCTCTTTTGTGACCACTACTTCTGAGCACACCAAACAGACATTTGCTATAAGTCTCTGTACCAAGGCTGGGCCTATAAGTCCACTGGGAATTCTTAACTAATGTCCCGCTCAGCTTTGACTCAGTAGTTCTCAAATGTCATGGCCACTGTCAGCCTGTGGACTCACTAACCATTTTGGTGCATCATCGGACCCACCATCTCTCTCCTGACTTCTTGGGTTTCTTAATATCAAGGCCACTTTTCTTGCTAGCACATCCAAGCGCACCCATTCCATTTAGAAACGTGTTTCTTGTTTTGTGTGTTCCCAG
Seq C2 exon
TTTCAATGGCCAGTACCTGGACCCATTCTTGCAATCGGCCAGCAAGTTCTTCATGCCTGGCTATCGGGTGATCTTCTACATCATGGTGGATAAGTCCCTGAAGTTACCTGAAATGGGGCACAACCCTCTACAGTCCTTCCAAGTACTCGTAGTAAGCCAGGAGAGGCAGTGGAGCGACTTTGACCTCATGCGCATGACAGTCTTGTCCAAGCACATCCGGGAGCACATCAGGTTTGAAGTGGACTTCCTCTTCGTCATGAGTGTCAACATGGTCTTCCAGAATGTGTTTGGGGTGGAGACTCTGAGCACGTCTGTGGCTCAGCTCCATGCTTGGTGGTATTTCCGAAAGACGACGCATCTCCCCTATGAGAGGAGACCTACATCAGCGGCCTACATCCCCTTTGGCCTGGGGGACTTCTATTATGCTGGTGCCATTATAGGTGGAGTGCCCTTTCAGGTCTTGGACTTCACTCATCAATACTTGAAAAGTGTTATTTTGGATATAGAAAATGGAGTTAACAGTACCTATGAAAAGTACCTCAACAAATATTTTTTCCTCAACAAACCCACCAAGCTCCTATCCCCAGAATATAGTTGGGACCAAACCTTCAACATCCCTCAGCAAGTGCATTATGTCAAGGTTGCTCATTACCCCACAGACGACTTATGATGCAGCAGTGTTGATGACCTCAGAGCCAACCACAGGAGTGCCTCAGAGACACAGACTCATGTTAAACACCCACATTTCAGAGACCCAATAATCTATATTATTTCCAAAATCAATTGCTCTTTCTTGTAATTTCAAATTGTCCAACTTGACTGAATCGAGGACGAATAAAATGTGGCACTTCATGTTCATACATGTAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027900:ENSRNOT00000034538:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=FE(15.9=100)
A:
NA
C2:
PF034148=Glyco_transf_6=PD(76.2=98.7)
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:
GCAGAACATCACCATGGGCTT
R:
AGAGTCTCCACCCCAAACACA
Band lengths:
345-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]