BtaINT0042303 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51861046-51861384:+
Coord C1 exon
chr22:51861046-51861205
Coord A exon
chr22:51861206-51861290
Coord C2 exon
chr22:51861291-51861384
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTGATC
5' ss Score
4.41
3' ss Seq
TTGCCCCTGCCCTGCCCCAGGTC
3' ss Score
8.74
Exon sequences
Seq C1 exon
GACAGAATTTGACCTGGATGCACTTGGCTCAGGCGGAGATGTGATCCGTGCCATCCGAGAGCTCAGCTACAAGGGGGGCAACACGCGCACAGGGGCCGCGATTCTCCACGTGGCTGACCGCGTCTTCCTGCCCCAGCTGGCCCGACCTGGTGTCCCCAAG
Seq A exon
GTGATCTCTCACCCTGCCCTGCCTTCCAGGGTGACCCCATGTGAAGGGTCTGAGGCAGTCCTGACTTGCCCCTGCCCTGCCCCAG
Seq C2 exon
GTCTGTATCCTCATCACAGACGGGAAGTCCCAGGACATGGTGGACACAGCTGCCCAGAGGTTGAAGGGGCAGGGAGTCAAGCTGTTTGCTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.094
Domain overlap (PFAM):
C1:
PF0009223=VWA=FE(30.6=100)
A:
NA
C2:
PF0009223=VWA=FE(17.9=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:
TTTGACCTGGATGCACTTGGC
R:
ACTTCCCGTCTGTGATGAGGA
Band lengths:
181-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]