BtaALTA0031199-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000015321 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr23:15954569-15957590:-
Coord C1 exon
chr23:15957390-15957590
Coord A exon
chr23:15954781-15954816
Coord C2 exon
chr23:15954569-15954780
Length
36 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGT
5' ss Score
11.37
3' ss Seq
AACCCTAATTTCCTTTTCAGGAC
3' ss Score
10.44
Exon sequences
Seq C1 exon
ACGAGTGAAGAAGATGAAGAGGTAGAGGAGGAGGAGGATCCGGAAGAAGACAGGAAATCCACAAGAGAAGAGGAGAGTGAATTGCCCAAGTCCCCGGAGCCGCCGCAAGGCCCGGTCCTGGCTCCCGCAGAGGGGCCGCCCCTGCAGGCCCTGGGCCAGCCCTCGGGCTCCTTCATCTGTGAAATGCCCAACTGCGGGGCG
Seq A exon
GACTGTAGATGTCATGTCACTCCCTTTCTTCCCCAG
Seq C2 exon
GTGTTCAGCTCCCGGCAGGCACTGAACGGCCACGCCCGCATCCATGGTGGCACCAACCAGGTGACCAAAGCTCGGGGCACTGTTCCCTCTGGGAAGCAGAAGCCTGGCAGTGCCCAGAGTGGGTACTGCTCGGTGAAGAGCTCACCCTCCCACAGCACCACCAGCGGCGAGACAGACCCCACCACCATCTTCCCCTGCAAAGAGTGCGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015321-15-16,15-15-2/2
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=0.776 A=NA C2=0.831
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGGCTCCTTCATCTGTGAA
R:
GAGCTTTGGTCACCTGGTTGG
Band lengths:
112-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development