BtaALTA0023639-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000038904 | PRRT1
Description
proline-rich transmembrane protein 1 [Source:HGNC Symbol;Acc:HGNC:13943]
Coordinates
chr23:27038200-27039760:+
Coord C1 exon
chr23:27038200-27038316
Coord A exon
chr23:27039225-27039544
Coord C2 exon
chr23:27039545-27039760
Length
320 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
CCTCTGCTTACCGCCCCCAGGTC
3' ss Score
9.37
Exon sequences
Seq C1 exon
GCCGGCTGCGCAATCTGCGCACCCAGACTCCGGTGCTAGCCAGGGACCCCGACTCCGGACTCCGGCTGCACGGATCTTGTCCCAGGGAGAGCGCAAGCATGTCATCCGAAAAGTCAG
Seq A exon
GTCTCCCTGACTCAGTCCCTCACACCTCTCCACCACCCTACAATGCCCCCCAGCCCCCCGCCGAACCTCCTGCCCCGCCCCCACAGACAGCCCCTTCCTCGCACCATCACCACCACCACCACTACCACCAGTCCGGCACTGCCACCCTCCCGCGCTTAGGGGCAGGGGGCCTGGCTTCTGGGGCCGCCGCTCAGCGCGGTCCCTCGTCCTCCGCTACCTTGCCAAGGCCCCCACACCATGCCCCTCCTGGCCCGGCCGCTGGGGCGCCCCCACCCGGCTGCGCTACCTTGCCCCGCATGCCACCCGACCCTTACCTGCAG
Seq C2 exon
GAGACTCGCTTCGAGGGCCCACTGCCCCCACCGCCGCCCGCCGCCGCCGCCCCGCCCCCGCCGGCGACCTCTCATACTGCCCAGGCCCCGGGCTTCGTGGTGCCCACGCACACGGGAGCGGTAGGCACGCTGCCGCTGGGTGGCTACGTAGCCCCGGGTTACCCTTTACAGCTGCAGCCTTGCACTGCCTACGTGCCGGTCTACCCGGTGGGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038904-1-1,1-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.816
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CAATCTGCGCACCCAGACTC
R:
GTGCCCACCGGGTAGACC
Band lengths:
322-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development