RnoINT0040376 @ rn6
Intron Retention
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117713190-117713331:+
Coord C1 exon
chr8:117713190-117713225
Coord A exon
chr8:117713226-117713295
Coord C2 exon
chr8:117713296-117713331
Length
70 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
AAAAGCCTTATCTTCCTTAGGGA
3' ss Score
6.55
Exon sequences
Seq C1 exon
GGAGAACCTGGGGATCCCGGAGAAGATGGAAGGAAG
Seq A exon
GTAAGCCCCTCTCTTGGAGGATGCTGTGGCCTCAGATTGGACCGTGTCTAAAAAGCCTTATCTTCCTTAG
Seq C2 exon
GGAGAAAAGGGAGATTCGGGTGTCCCTGGAAGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579:ENSRNOT00000027994:65
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAACCTGGGGATCCC
R:
GGGACACCCGAATCTCCCTTT
Band lengths:
62-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]