GgaINT1010155 @ galGal4
Intron Retention
Gene
ENSGALG00000005811 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr12:9079065-9079568:+
Coord C1 exon
chr12:9079065-9079127
Coord A exon
chr12:9079128-9079523
Coord C2 exon
chr12:9079524-9079568
Length
396 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
ATCTCCATCTCTTGCTCCAGGGC
3' ss Score
9.13
Exon sequences
Seq C1 exon
GGTGAAGGCGGCTCACGGGGCGAGCGAGGAGAGCCTGGCGAGAAGGGCAGGGATGGCTCTCCA
Seq A exon
GTGAGTATGGTGCCGAACCTCCATTCTCATTTCCCCCTCCATCATCCTTGTCATCTCCATCCCCGTCACATCTGCATCACCCCTGTGCTTTCCACCTCCGTCTCCATCATGTTTCCCGCCACCCCAATGGTCTCCATCTCCACCATGTTCTCCATCACCCCCATGGACTCCATCTCCATCCCCATGGCATTCTCCACTCTCATGGACTCCACCTCCATCTTCATCATGTTCTCCATCCCCATTATGGTCTCCATCGCTCCCATGGTCTCCATCTCCATCCTCATCACAATCTCCATCAACCAACCCCATTGTCTCCATCTCCATCCCTGTCCCTGTCATCCCCATCTCCATCCTCATCACCACTATTGTCTCCACCATCTCCATCTCTTGCTCCAG
Seq C2 exon
GGCCTCCCAGGAGAGAGGGGTCTGGCTGGCCCTGAGGGGAAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005811:ENSGALT00000009331:76
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(31.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(12.7=53.3),PF0139113=Collagen=PU(17.7=73.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]