BtaALTD0022408-2/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000021518 | TMPRSS4
Description
Bos taurus transmembrane protease, serine 4 (TMPRSS4), mRNA. [Source:RefSeq mRNA;Acc:NM_001101973]
Coordinates
chr15:29228237-29229626:+
Coord C1 exon
chr15:29228237-29228264
Coord A exon
chr15:29228265-29228403
Coord C2 exon
chr15:29229528-29229626
Length
139 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
TTCCTCTCTGCTCCTGGTAGGCA
3' ss Score
7.51
Exon sequences
Seq C1 exon
GAAGCATCTCGATGTGCCCAACTGGAAG
Seq A exon
GTGAGGGCTGGCTCAGACAGATTGGGCAGCTTCCCATCCCTGCCTGTGGCCAAGATCTTCATCCTTGAGCCTAACGCCACATATCCCAGAGAGCACGACATTGCCCTCGTGAAGCTGCAGCTCCCGCTCACGTTCTCCG
Seq C2 exon
GCACAATCAGGCCCATCTGCCTGCCCTTCTCTGATGAGGAGCTCACTCCAGGCACCCCACTCTGGGTCATCGGATGGGGCTTTACAGAAGAGAACGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021518-14-19,15-19,16-19-2/3
Average complexity
Alt5
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:
PF0008921=Trypsin=FE(24.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.7=100)
Main Skipping Isoform:
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:
GAAGCATCTCGATGTGCCCAA
R:
CCGTTCTCTTCTGTAAAGCCCC
Band lengths:
125-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development