BtaINT0042207 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030190 | COL6A3
Description
collagen, type VI, alpha 3 [Source:HGNC Symbol;Acc:HGNC:2213]
Coordinates
chr3:117436438-117436719:-
Coord C1 exon
chr3:117436669-117436719
Coord A exon
chr3:117436474-117436668
Coord C2 exon
chr3:117436438-117436473
Length
195 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
CATTTATTTATCTTTTATAGGGA
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGAGATGATGGGCGAGATGGAGTTGGCAGCGAAGGTCGCATAGGCAAGAAG
Seq A exon
GTATTTATCTGCCGAGGAGTCTGGAACTCTGACATGTTGTAGTTTTAAAGATTTATCTCACAAAATTTAATCGTAACATGGTGAACTTTTTCTCTTGGTGACACTGGATCTATTTCTGTTCTGCTTGAGAATAATTTATGTTAGATGATTTTAAGCTGGGACCCAAATATTGAGTCATTTATTTATCTTTTATAG
Seq C2 exon
GGAGAAAGAGGATTCCCTGGATACCCAGGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030190:ENSBTAT00000018479:29
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:
NO
A:
NA
C2:
NO
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:
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]