BtaALTA0026241-1/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000001828 | SCRN2
Description
Bos taurus secernin 2 (SCRN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205804]
Coordinates
chr19:39239631-39240061:+
Coord C1 exon
chr19:39239631-39239796
Coord A exon
NA
Coord C2 exon
chr19:39239998-39240061
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
GGACCCTGCCTCGATTCCAGACT
3' ss Score
4.81
Exon sequences
Seq C1 exon
GGGGTATCACAGCAGAGGTGATGATGGGCATCCTCAGGGACAAGGAGAGCGGCATCTGTATGGACTCTGGGGGCTTCCGCACCACGGCCAGCATGGTGTCTGTGCTGCCCCGGGACACCACCCAGCCCTGCGTGCACTTCCTCACTGCCACACCAGACCCATCCCG
Seq A exon
NA
Seq C2 exon
ACTCAGGTGGATCGCCGGCACCCTCTCTACCGTGGACACCAGGTGGCCCTGGGACTGATGGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001828-5-13,5-12,5-11-1/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.344
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(4.0=17.9)
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:
ATCCTCAGGGACAAGGAGAGC
R:
CTGGTGTCCACGGTAGAGAGG
Band lengths:
179-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development