BtaINT0042328 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51873801-51874074:+
Coord C1 exon
chr22:51873801-51873836
Coord A exon
chr22:51873837-51874029
Coord C2 exon
chr22:51874030-51874074
Length
193 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
GGGCTTCTCTCCACCACCAGGGT
3' ss Score
7.65
Exon sequences
Seq C1 exon
GGTGAAGTTGGAGAGAAGGGCGATGACGGTCCCCCG
Seq A exon
GTGAGACTCCTTCCCACTGTGGTTTCTGATCCTTTGTCCTTGAGTGGGAATCCTGGGGGGTGGGCTCCACCAGGTTATCCCATCCATCCTCCTGCCTCCTGTCCAGTCAGTACCCAGGCCCGTTTGGCCGCCCCTCTCTGAGTTAGTTTGAGCCTAACTCATCTGTTTGATACGGGCTTCTCTCCACCACCAG
Seq C2 exon
GGTGACCCAGGTTTGCCTGGAAAAGCTGGCGAGCGTGGCCTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:52
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:
PF0139113=Collagen=PU(16.9=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]