GgaINT1010139 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9072409-9072619:+
Coord C1 exon
chr12:9072409-9072471
Coord A exon
chr12:9072472-9072559
Coord C2 exon
chr12:9072560-9072619
Length
88 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTGGCTTTTTCACCTCGCAGGGT
3' ss Score
9.44
Exon sequences
Seq C1 exon
GGTCCACCTGGGGAGCCCGGCCCACGGGGACTTGCTGGTACTCCTGGCCCCAAGGGTGAGAAG
Seq A exon
GTAAGAGGGAGCCAGGACCCCCCTGTCTCTGTGATGGGGACAGATAGCCCCATCTCATGGGCACACTGCTGGCTTTTTCACCTCGCAG
Seq C2 exon
GGTGATGGTGAGGAGGGATTCCCAGGGCCACCTGGCCGCCCAGGGGACCCTGGAGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:37
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGACTTGCTGGTACTCCT
R:
AGGTGGCCCTGGGAATCC
Band lengths:
71-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]