RnoINT0007836 @ rn6
Intron Retention
Gene
ENSRNOG00000019648 | AABR07068316.1
Description
collagen type VI alpha 3 chain [Source:NCBI gene;Acc:367313]
Coordinates
chr9:97946186-97946354:-
Coord C1 exon
chr9:97946304-97946354
Coord A exon
chr9:97946222-97946303
Coord C2 exon
chr9:97946186-97946221
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
TGACATCTTGTCTTTTACAGGGA
3' ss Score
11.39
Exon sequences
Seq C1 exon
GGAGATGACGGGAGAGATGGGGTTGGCAGTGAAGGACGCAGAGGCAAAAAA
Seq A exon
GTACGTATCTGTTGAAGCTTCTAGAGATGTCCCCATCGTTGAGAGTCACCAAGGATGGTATCTGACATCTTGTCTTTTACAG
Seq C2 exon
GGAGAGAGAGGCTTCCCTGGGTATCCGGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019648:ENSRNOT00000077924:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping 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:
GGAGATGACGGGAGAGATGGG
R:
CTTTGGTCCCGGATACCCAGG
Band lengths:
87-169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]