BtaALTA0014151-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000003829 | HPN
Description
Bos taurus hepsin (HPN), mRNA. [Source:RefSeq mRNA;Acc:NM_001080241]
Coordinates
chr18:45971859-45972640:+
Coord C1 exon
chr18:45971859-45972006
Coord A exon
NA
Coord C2 exon
chr18:45972571-45972640
Length
0 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CCTTGTTCATCTCCCCACAGGTC
3' ss Score
12.6
Exon sequences
Seq C1 exon
GCCAGGCCTAGCAGGCCCCTCGCGCTGCCGCTGCCTCTGCCTCCGGCCCGCCTGCCGCTGCGGGGCCACCATGCTCCTGCCCAGGCCTGGAGACTGACCCTAAACCCGCACCATCTCTCAGCTCCGCCCCCACCTGCCGGACCCCAGG
Seq A exon
NA
Seq C2 exon
GTCCCGCCCCGGCCCCGGAGGTCAGCCGGGGAATCATTAACTAGAGGCTGTGACATGGCGGAGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003829-0-2,0-1-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.167
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
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
(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:
CACCATGCTCCTGCCCAG
R:
TCCTTCTCCGCCATGTCACAG
Band lengths:
150-292
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development