BtaALTA0030719-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021518 | TMPRSS4
Description
Bos taurus transmembrane protease, serine 4 (TMPRSS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101973]
Coordinates
chr15:29219107-29222404:+
Coord C1 exon
chr15:29219107-29219236
Coord A exon
chr15:29222300-29222302
Coord C2 exon
chr15:29222303-29222404
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
CCTTTCCCTCCCAACACTAGCAG
3' ss Score
5.3
Exon sequences
Seq C1 exon
TCCGCCTCTCCAGGGACCGATCCACCCTGCAGGTGCTGAACCCCGCCACGAAGAACTGGGCCTCCGCCTGTTTCGACAGCTTCACAGAAGCTCTGGCCAAGACCGCCTGTCGGCAGATGGGCTATGACAG
Seq A exon
CAG
Seq C2 exon
CAAACCCACCTTCAGAGCTGTGGACGCTGGCCCAGCCCAAGATCTGGACATCGTCAAAGTCACAGAGAACCTGCAGGAGCTTCAGGTGCAAAACTCAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021518-7-9,7-8-2/2
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=0.000
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PU(41.9=88.6)
A:
NA
C2:
PF154941=SRCR_2=FE(36.6=100)
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:
TCGGCAGATGGGCTATGACAG
R:
TCCTGCAGGTTCTCTGTGACT
Band lengths:
99-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development