BtaINT0042250 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012837 | COL6A6
Description
collagen, type VI, alpha 6 [Source:HGNC Symbol;Acc:HGNC:27023]
Coordinates
chr1:153352770-153352959:-
Coord C1 exon
chr1:153352924-153352959
Coord A exon
chr1:153352807-153352923
Coord C2 exon
chr1:153352770-153352806
Length
117 bp
Sequences
Splice sites
5' ss Seq
TCTGTATGT
5' ss Score
3.86
3' ss Seq
TTTTATCTTTTGAACTGCAGACA
3' ss Score
7.96
Exon sequences
Seq C1 exon
GGTGTGAAAGGGGCCAAAGGATTGGCTTCGTTTTCT
Seq A exon
GTATGTATCTGTTGACTCCAACAGAGCCCAAGCATCCCGTGACATTTATTTATTTCTCAACTTGCAGGACCTGGAGTCTGTTGGTTAATTCATTCTGTTTTATCTTTTGAACTGCAG
Seq C2 exon
ACATGTGAGCTCATCCAGTATGTGCGGGACCATAGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012837:ENSBTAT00000017057:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.417 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(16.9=83.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]
SPECIAL DATASETS
- Pre-implantation embryo development