BtaINT0042355 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51879783-51880166:+
Coord C1 exon
chr22:51879783-51879827
Coord A exon
chr22:51879828-51880130
Coord C2 exon
chr22:51880131-51880166
Length
303 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CAGCTCCCTTCTCTATACAGGGT
3' ss Score
8.92
Exon sequences
Seq C1 exon
GGTCTGCCAGGAGAGCGCGGCGTGGCTGGGCCCGAGGGGAAGCCG
Seq A exon
GTGAGTGGAAGCAGGAACAGCCTGGGCCGAGTTCTGGGGCACAGTCACCCTTTTGCGGTGTGCTGGCCCTGCATGCAGGTCACCTGTGTCCAGTGATGGGGTGTGCCTGGTTGCCCAGGTCCAAGCGCACATGTCTGATGGCTGTGTGTGTGCACAGGCCCATGTGTACTGTCCATGAGGGGCAGTTCATGGGTACGCGGTGACTTGTACCTGGGAGGGGTGAGGGTCCAGAGGTGGGGCCTCCAGGCAAAGGTCTCCCACGGGAGGCCAGATTGAGGCTTAGCAGCTCCCTTCTCTATACAG
Seq C2 exon
GGTCTGCAAGGTCCACGGGGGACCCCTGGCCCGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:79
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=FE(20.6=100),PF0139113=Collagen=PU(14.8=60.0)
A:
NA
C2:
PF0139113=Collagen=FE(18.0=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:
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]