RnoINT0039566 @ rn6
Intron Retention
Gene
ENSRNOG00000007657 | Col27a1
Description
collagen type XXVII alpha 1 chain [Source:RGD Symbol;Acc:735115]
Coordinates
chr5:79094712-79095160:+
Coord C1 exon
chr5:79094712-79094765
Coord A exon
chr5:79094766-79095115
Coord C2 exon
chr5:79095116-79095160
Length
350 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
CCCCCATATTTCTGTTTCAGGGG
3' ss Score
11.5
Exon sequences
Seq C1 exon
GGGCAGCCAGGACCTGAGGGCAGTCCAGGGGCCAAAGGTTACCCTGGCAGGCAG
Seq A exon
GTGCAGTATATGCTCTGGAAGCTCTGGCCATGGTGGTGGCCAAGGTGCCCCAAGGAGAGGGAGGCTGTGGGCTGGGGCCAATAAACTGCCCCAGGGCGTAGGCCCTAAGGAAAGGGCTGGCTGGGGATTAGACCTGGCCATGATGCTTCTAGGAGAGTCTATGGGAGAACTAGGGCTTAGAGGAAGGGTTCCCAAGCCTCCTCGCCAGTCTCCTCCTGAGCCACCTCTGGTTCAACCCATGACATGGATGCTTCTAAGGACAACTGAAGCCCAAGACAAGATTGGCCCTGGGACATTGGTGGCAGGGAGAGAGTCTCCATATGTCCTTGCCCCCCATATTTCTGTTTCAG
Seq C2 exon
GGGTTCCCTGGACCTGTAGGAGACCCTGGCCCCAAAGGCAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007657:ENSRNOT00000010333:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.5=100),PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(20.8=88.9)
A:
NA
C2:
PF0139113=Collagen=PD(5.7=33.3),PF0139113=Collagen=FE(20.6=100),PF0139113=Collagen=FE(18.2=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]