GgaALTD1006631-2/3 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9078764-9079127:+
Coord C1 exon
chr12:9078764-9078808
Coord A exon
chr12:9078809-9078819
Coord C2 exon
chr12:9079065-9079127
Length
11 bp
Sequences
Splice sites
5' ss Seq
GTAGTAAGT
5' ss Score
8.01
3' ss Seq
TGCACCTCTCCCCACATCAGGGT
3' ss Score
6.92
Exon sequences
Seq C1 exon
GGTGAGCCTGGTGCCGAGGGCGAGCGAGGACCCAAAGGAGATAAG
Seq A exon
GTCTGAGTGTA
Seq C2 exon
GGTGAAGGCGGCTCACGGGGCGAGCGAGGAGAGCCTGGCGAGAAGGGCAGGGATGGCTCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811-81-88,82-88,83-88-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(22.2=100)
A:
NA
C2:
PF0139113=Collagen=FE(31.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
- GgaALTD1006631-1/3
- GgaEX0008179
- GgaEX1016952
- GgaEX1016953
- GgaEX1016954
- GgaEX1016955
- GgaEX1016956
- GgaEX1016957
- GgaEX1016958
- GgaEX1016959
- GgaEX1016961
- GgaEX1016962
- GgaEX1016963
- GgaEX1016964
- GgaEX1016965
- GgaEX1016966
- GgaEX1016967
- GgaEX1016968
- GgaEX1016969
- GgaEX1016971
- GgaEX1016972
- GgaEX1016973
- GgaEX1016974
- GgaEX1016975
- GgaEX1016976
- GgaEX1016977
- GgaEX1016978
- GgaEX1016979
- GgaEX1016981
- GgaEX1016982
- GgaEX1017009
- GgaEX1017010
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGAGCCTGGTGCCGAGG
R:
GAGCCATCCCTGCCCTTCTC
Band lengths:
103-114
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]