GgaINT1010143 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9073547-9073821:+
Coord C1 exon
chr12:9073547-9073579
Coord A exon
chr12:9073580-9073767
Coord C2 exon
chr12:9073768-9073821
Length
188 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGCC
5' ss Score
7.58
3' ss Seq
GGGTGACAGAGGATTTTCCAGGA
3' ss Score
-24.71
Exon sequences
Seq C1 exon
GCTCCCAGTGTGGCCACTGTCAGAGGAGAGAAG
Seq A exon
GTAGCCTTGTCCCTGACCTTTGGTAGTGTCCCCATGGCACAGCTGGGATGGGGGCATGGCACAGCGGTGCTGGATGCTGGCACCGCGGGGATGCCCATGCTGATCCTCAGCTGCAGCATGGGGAAGGGGAAATGTGGGGGGGCTAATGGTGCCATTTCATCTGCTCCAGGGTGACAGAGGATTTTCCA
Seq C2 exon
GGACCAGAGGGGCCTCCTGGCCCCAAGGGCGATGTAGGGGAGAGGGGTGCCCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:45
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(7.6=45.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
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]