BtaINT0042300 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51868737-51869043:+
Coord C1 exon
chr22:51868737-51868909
Coord A exon
chr22:51868910-51869007
Coord C2 exon
chr22:51869008-51869043
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGG
5' ss Score
5.63
3' ss Seq
AGGAGACCCTGTATCCACAGCCA
3' ss Score
2.8
Exon sequences
Seq C1 exon
GGCTCAGAGTGATGATGCTGGGGCTGGCGGGAGCTGACCCAGAGCAGCTGCGTCGCTTGGTGCCTGGCATGGACCCTTCCCAGACCTTCTTCGCTGTGGATGATGGTCTGAGCTTGGAGCGGGCCGTCAGTAGTCTGGCAGCAGCCCTGTGTCAGACAGCCTTGACCACGCAG
Seq A exon
GTTTGGAAGGGGCATCTGGGGGACTAGGTGGTGGAGAAGAATGGGTCTGGGGGCTCTGGGTTGAACTGCCTGACCTCAAGGAGACCCTGTATCCACAG
Seq C2 exon
CCACAGCCAGAGCCTTGCTCAGTGCATTGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.448 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(25.6=77.6)
A:
NA
C2:
PF0139113=Collagen=PU(6.6=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGATGATGCTGGGGCTGG
R:
GCAAGGCTCTGGCTGTGG
Band lengths:
183-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]