BtaALTA0023335-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000012111 | PRDM5
Description
PR domain containing 5 [Source:HGNC Symbol;Acc:HGNC:9349]
Coordinates
chr6:4624015-4640873:+
Coord C1 exon
chr6:4624015-4624172
Coord A exon
chr6:4640620-4640779
Coord C2 exon
chr6:4640780-4640873
Length
160 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
TTTTTCTCCCGTGAACACAGCGT
3' ss Score
4.63
Exon sequences
Seq C1 exon
AAAAACGACCCTATAATTGTGAGATTTGTAATAAATCTTTCAAGAGGCTTGACCAAGTGGGTGCCCACAAAGTGATACACAGTGAAGATAAACCTTACAAGTGCAAGCTCTGTGGAAAGGGGTTTGCTCACAGAAATGTTTACAAGAATCACAAGAAG
Seq A exon
CGTATTTGAGTTTCTGATTTTATGGAAGAATGTTCCGAGAAGAAACAGGATGTTGTCTGCCTTCCTCTCTCTCCTGGTTCCCATCGTGAATCCAGACTCTGGTTACTGTAATGACTGGTCGTTCTAGAGCCTGCTGACTCAGGATGTCTTCCTTCTGCAG
Seq C2 exon
ACCCACTCGGAGGAGAGGCCATTCCAGTGCGAGGAGTGTAAAGCTCTCTTCCGGACTCCGTTTTCTTTGCAGAGACACCTGCTTATACATAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012111-20-14,20-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF144711=DUF4428=PD(2.0=1.9),PF134651=zf-H2C2_2=PD(57.7=28.3),PF121713=zf-C2H2_jaz=PU(84.0=39.6)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(8.0=6.2),PF134651=zf-H2C2_2=PU(38.5=31.2)
Main Inclusion 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:
ACGACCCTATAATTGTGAGATTTGT
R:
TGTTATGTATAAGCAGGTGTCTCTG
Band lengths:
248-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development