RnoINT0039238 @ rn6
Intron Retention
Gene
ENSRNOG00000012759 | Col19a1
Description
collagen type XIX alpha 1 chain [Source:RGD Symbol;Acc:1308920]
Coordinates
chr9:30551631-30551811:-
Coord C1 exon
chr9:30551761-30551811
Coord A exon
chr9:30551676-30551760
Coord C2 exon
chr9:30551631-30551675
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TGATTTCTCTTCTTTTGAAGGGA
3' ss Score
8.66
Exon sequences
Seq C1 exon
GGTGTCCCGCTCAACGAGGGGAATGGCATGGGCAGTTTATATAAAATCCAG
Seq A exon
GTACCTCCACATCTAATTTCCTATGATCATTTCCCAGCCACAGGTTTCTATAAACTCTTCTCATCTGATTTCTCTTCTTTTGAAG
Seq C2 exon
GGAGGAGTGAATGTTCCCAGTTACCCAGGACCTCCGGGCCCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012759:ENSRNOT00000017169:38
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=PD(12.9=52.9)
A:
NA
C2:
PF0139113=Collagen=PU(13.1=53.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAACGAGGGGAATGGC
R:
CGGAGGTCCTGGGTAACTGG
Band lengths:
79-164
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]