BtaALTA0026239-3/4 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000001828 | SCRN2
Description
Bos taurus secernin 2 (SCRN2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205804]
Coordinates
chr19:39238652-39239512:+
Coord C1 exon
chr19:39238652-39238851
Coord A exon
chr19:39239297-39239442
Coord C2 exon
chr19:39239443-39239512
Length
146 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
ACCCCTCATCTCCTCTGTAGAGG
3' ss Score
8.68
Exon sequences
Seq C1 exon
GCTGGCTTTGGAACGGGGCAGCTCTGCCCGGGAGGCCTTGCACGTGATCACAGGCTTGCTGGAGCGCTACGGGCAGGGGGGCAGCTGCCGGGAGGACCCCACGCCATTCTGCTACCACAACACTTTCCTGCTGGCCGACCGGACTGAGGCCTGGGTGCTGGAGACGGCGGGGAGGCTGTGGGCTGCACGGAGGATCCAGG
Seq A exon
AGGGGGTCCACAACATCTCCAACCAGCTGAGCATCGGCTCGGACATCTCGGCAGAACACCCTGAGCTCCGGCCCCACGCCCAGGTCCAGGGCTGGTGGGACGGGCAGGGCACCTTTGACTTTGCCCAGGTCTTCTCCCTGAGCCAG
Seq C2 exon
CAGCCTGTGCGCATGGAGGCTGCCAAGGCCCGCTTCCGGGCCGGGCAGGAGCTGCTGCAGCAACAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001828-3-7,3-6,3-5,3-4-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=FE(27.1=100)
A:
NA
C2:
PF0357710=Peptidase_C69=FE(29.1=100)
Main Skipping 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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTTGGAACGGGGCAG
R:
GCCTTGGCAGCCTCCATG
Band lengths:
226-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development