BtaINT0128576 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047807 | SAPCD2
Description
suppressor APC domain containing 2 [Source:HGNC Symbol;Acc:HGNC:28055]
Coordinates
chr11:106172583-106172938:+
Coord C1 exon
chr11:106172583-106172693
Coord A exon
chr11:106172694-106172809
Coord C2 exon
chr11:106172810-106172938
Length
116 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCGCCCTCCCACCTCCCCAGGAG
3' ss Score
9.18
Exon sequences
Seq C1 exon
GCTCTGCCCTCGTCCTCCTCGGGGCCCCCTGGCCCTGTGTCACCCTCGGCCCCCAACTGGCAGCAGCAGACCATCCTCATGCTGAAGGAGCAGAACCGGCTCCTGACCCAG
Seq A exon
GTGGGCGGGGGCTGCGGGCGGGGTGCAGGCAGGGGTTGGAGGCGGGATGCGGTCCGGGGTGCTAGCAGGGGCTGGGGGGCCCTGGCCAGGCCCTGACCGCCCTCCCACCTCCCCAG
Seq C2 exon
GAGGTGACCGACAAGAGTGAGCGGATCACACAGCTGGAGCAGGAGAAGTCTGCCCTCATCAAGCAGCTGTTTGAGGCCCGAGCCCTCAGCCAGCAGGACGCCGGGCCCCTGGACTCCACCTTCATGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047807:ENSBTAT00000063271:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.676 A=NA C2=0.452
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCCCTCGTCCTCCTC
R:
ACATGAAGGTGGAGTCCAGGG
Band lengths:
237-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development