BtaINT0042268 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51885246-51885582:+
Coord C1 exon
chr22:51885246-51885317
Coord A exon
chr22:51885318-51885546
Coord C2 exon
chr22:51885547-51885582
Length
229 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
CCCACCTGCGTTCCCCACAGGGC
3' ss Score
12.15
Exon sequences
Seq C1 exon
GGCACCAAGGGAGAGCCTGGTGACAAGGGCTCAGCCGGGCTGCTGGGAGCGCGCGGACTCATGGGACCCAAG
Seq A exon
GCAAGTCCCATCCCAGGCACTGACCCGGAGCCATGGGTCACACCCGCCTGTCCGGGGTGTCCCCTGAGCACTGGAGGGTTCCCGCCTCCCTCACTGTTGGCCCCACGCGTACTCACACGGGCTGGTGTGCAGACCGGGCCCTGGCTGCAGTCGCCGAGGGTGGCAGATGGGCCAGCACGGGGGACAGTGGCACTGAAGGGCTGCCCTCTCCCACCTGCGTTCCCCACAG
Seq C2 exon
GGCGAGCCTGGTGCCGCAGGGATCCCCGGCGAACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:103
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(34.5=83.3),PF0139113=Collagen=PU(21.2=58.3)
A:
NA
C2:
PF0139113=Collagen=FE(16.7=100)
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:
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]