BtaINT0042271 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51886175-51886367:+
Coord C1 exon
chr22:51886175-51886228
Coord A exon
chr22:51886229-51886313
Coord C2 exon
chr22:51886314-51886367
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
CTTCCACCTGATCGCTGCAGGGA
3' ss Score
6.71
Exon sequences
Seq C1 exon
GGTGAACGGGGAATTAAGGGAGCCTGTGGCCTCGACGGAGAGAAGGGAGATAAG
Seq A exon
GTACAGGGGTGATGAGGGATATGGGGGGACGTGGGGTCTACGGGGCCTGGGGCCTAAGGCTGACCCTTCCACCTGATCGCTGCAG
Seq C2 exon
GGAGAAGCCGGCCCCCCGGGCCGCCCAGGGCTGGCAGGACGCAGAGGAGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:106
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(16.7=61.1),PF0139113=Collagen=FE(21.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.5=100)
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:
AACGGGGAATTAAGGGAGCCT
R:
AGCTCTCCTCTGCGTCCTG
Band lengths:
103-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]