BtaALTA0023342-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000004538 | PRDM9
Description
Bos taurus zinc finger protein 596 (ZNF596), mRNA. [Source:RefSeq mRNA;Acc:NM_001101948]
Coordinates
chr1:45076922-45078661:+
Coord C1 exon
chr1:45076922-45077013
Coord A exon
NA
Coord C2 exon
chr1:45077489-45078661
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CATTTCATTTCAAAAAGCAGTGG
3' ss Score
0.04
Exon sequences
Seq C1 exon
TCATTTCAGATAGAGAAGATGATCCAAAAAAACAGGAAATGTTATCTATGCAACATATCTGCAAGAAGGACGCACCTCTAATTAGTGCAATG
Seq A exon
NA
Seq C2 exon
TGGTCTCACACTCAAGAGGATCCTTTGGAATGCAACAACTTCAGAGAAAAATTTACTGAAATCTTACCATTGACTCAGTATGTAATACCTCAAGTGGGAAAGAAACCCTTTATTAGCCAAGATGTTGGAAAAGCCATCAGTTACTTGCCATCCTTTAATATACAGAAGCAGATTCATTCTAGAAGTAAATCATATGAATGTCATCAAAGAAGGAATACCTTTATTCAAAGTTCTGCCCATAGACAACACAATAATACTCAGACTGGAGAGAAAACATTTGAATGTCATGTATGTAGGAAAGCCTTCAGTAAAAGTTCTAACCTTAGACGACATGAGATGATTCACACTGGAGTGAAACCACATGGATGTCATCTTTGTGGAAAATCCTTCACTCATTGTTCTGACCTTAGAAAACATGAAAGAATTCACACTGGAGAGAAATTATATGGATGTCATCTGTGTGGCAAAGCCTTCAGTAAAAGTTATAATCTTAGGCGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004538-20-22,20-21-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=0.082
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0172213=BolA=WD(100=13.3),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6),PF134651=zf-H2C2_2=WD(100=6.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
GCAACATATCTGCAAGAAGGACG
R:
TTTCTCTGAAGTTGTTGCATTCCA
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development