RnoINT0040542 @ rn6
Intron Retention
Gene
ENSRNOG00000023317 | Colgalt1
Description
collagen beta(1-O)galactosyltransferase 1 [Source:RGD Symbol;Acc:1309002]
Coordinates
chr16:20050078-20050669:+
Coord C1 exon
chr16:20050078-20050205
Coord A exon
chr16:20050206-20050462
Coord C2 exon
chr16:20050463-20050669
Length
257 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TCTCTGATTCTGCACCCTAGCTA
3' ss Score
5.61
Exon sequences
Seq C1 exon
GTGGTTGACCGGGGACTACAGAAATCACTAGTCTTTGAGGATGATCTACGTTTTGAGATCTTCTTCAAGAGACGTCTGATGAACCTCATGCAGGATGTGGAGCGTGAGGGGCTGGATTGGGACCTCAT
Seq A exon
GTAAGTGGAGGTTGGTGGAAGGGTTGGGGATGGGACACCAGTCTTGGGTATGGCCCAGGCATGACCAGGGCTCAGGGGCAGAGCCTGGAACTTAAGGGTGAAGTAAGTCTAGAGCCTGGAGGATGTCGGAGCTCTGCTGTCTGTGGCTTGACTTGGTTCCTGCCCAATTTTCCTGTGCCCAGCCCTATTCCTTGTCTCTGTGTAGTATTCTATGGCACGTGGGTGGCATGTAACAAGTCTCTGATTCTGCACCCTAG
Seq C2 exon
CTACGTGGGCCGGAAGCGCATGCAGGTGGAGCACCCTGAAAAAGCTGTGCCCCGTGTAAGGAACCTGGTGGAGGCTGATTACTCCTACTGGACACTAGCCTATGTAATCTCCCTGCAAGGTGCTCAGAAGTTGCTTGCTGCCAAGCCACTGGCCAAAATGCTACCTGTCGATGAGTTTCTGCCTGTCATGTTTGACAAGCACCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023317:ENSRNOT00000024866:10
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:
PF0175512=Glyco_transf_25=FE(22.6=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=PD(32.3=85.7)
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:
GGTTGACCGGGGACTACAGAA
R:
TCGACAGGTAGCATTTTGGCC
Band lengths:
297-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]