RnoINT0040302 @ rn6
Intron Retention
Gene
ENSRNOG00000020579 | Col7a1
Description
collagen type VII alpha 1 chain [Source:RGD Symbol;Acc:1311417]
Coordinates
chr8:117721260-117721575:+
Coord C1 exon
chr8:117721260-117721335
Coord A exon
chr8:117721336-117721539
Coord C2 exon
chr8:117721540-117721575
Length
204 bp
Sequences
Splice sites
5' ss Seq
CAAGTTCAC
5' ss Score
-9.23
3' ss Seq
CCTCAATCTGTTTCCCACAGGGC
3' ss Score
9.67
Exon sequences
Seq C1 exon
GGCTCCAAAGGAGAGCCTGGAGACAAAGGCTCGGCTGGCTCCACTGGAGTTCGCGGACTCACAGGACCCAAGGCAA
Seq A exon
GTTCACCCCAGGCTTAGTCACTCACGCTCACACCTGCCTTGGGGATTTCTTACGTTAAAGGGATCTTGGTTTCCTTGGTCACGTGTGTTCACATGGGCTCTATGTGTAGACTGAGCCCTGGCTTAACTGGGTCAACAAACGATTGCCTGTGCCAGCTTAGGGCACCATTACACTGAAGGACATACCTCAATCTGTTTCCCACAG
Seq C2 exon
GGCGAGCCAGGTGCTGCAGGGATCCCCGGTGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020579:ENSRNOT00000027994:103
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(39.1=100)
A:
NA
C2:
PF0139113=Collagen=PD(1.6=9.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
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]