BtaINT0042356 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51862284-51862650:+
Coord C1 exon
chr22:51862284-51862400
Coord A exon
chr22:51862401-51862503
Coord C2 exon
chr22:51862504-51862650
Length
103 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CTTCTGTGCCCCCCGGGCAGGTG
3' ss Score
9.79
Exon sequences
Seq C1 exon
CTGCTCTGGAGGGGCCAGAAGTGACCATCCAGAACACCACAGCCCACAGCCTCCTGGTGGCCTGGCAGAGTGTGCCAGGTGCCACTGGCTACCGGGTGACGTGGCGGGTCGTCAGGG
Seq A exon
GTGAGTGAGGTGCTGTGGGAGGAAGGGAGTCCTTGCGCCTCAGACAGAACGGTGGGGTCCTGAGTCTGCAAGACCCACTGACCCTTCTGTGCCCCCCGGGCAG
Seq C2 exon
GTGGGGCCACACAGCAGCAGGAGCTGGGCTCTGGGCAGGGGTCAGTGTTGCTGAGGGACCTGCAGCCTGGCACCGACTACGAGGTGACCGTGAGTGCCCTGCTTGGCCGGAGCGTGGGGCCAGCCACCTCCCTGACTGCCCGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.220
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(44.2=85.0)
A:
NA
C2:
PF0004116=fn3=PD(54.5=84.0)
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:
GGCCAGAAGTGACCATCCAGA
R:
CAGTCAGGGAGGTGGCTGG
Band lengths:
243-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]