BtaALTA0028797-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000014782 | STAB1
Description
Bos taurus stabilin 1 (STAB1), mRNA. [Source:RefSeq mRNA;Acc:NM_001205570]
Coordinates
chr22:48905179-48909562:-
Coord C1 exon
chr22:48909482-48909562
Coord A exon
chr22:48905316-48905354
Coord C2 exon
chr22:48905179-48905315
Length
39 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CGAGTCCTGGCTGTGTGCAGGGT
3' ss Score
5.88
Exon sequences
Seq C1 exon
ATGGCAGGGCCCCGCGGCCACCTCTTGCTCTGCTTCCTGGCTCTCTGCTTGGCAGGCCCCAGCTTCTTTGGGGAGCAGAAG
Seq A exon
GGTCCAGGCCCCTCACTGCAAACCCTGCCCCTGGGCCAG
Seq C2 exon
GTCCGGTCCAAACGCTGCGATGTGAAGACCAAGTTCGTCACTCACATACCCTGCACCCCATGCCCCGCCATCAAGAAGCGAGTGTGTCCCTTGGGCTGGATTCGGGCCTTCCCGGAGAAGATCTCACAGGACTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014782-0-4,0-3,0-2-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
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:
CACCTCTTGCTCTGCTTCCTG
R:
GTGCAGGGTATGTGAGTGACG
Band lengths:
119-158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development