BtaALTD0023048-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000018710 | TTF1
Description
Bos taurus transcription termination factor, RNA polymerase I (TTF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102083]
Coordinates
chr11:102493466-102497035:-
Coord C1 exon
chr11:102496897-102497035
Coord A exon
chr11:102496890-102496896
Coord C2 exon
chr11:102493466-102493555
Length
7 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CTGTTTTTCTGTTAACACAGGAC
3' ss Score
6.46
Exon sequences
Seq C1 exon
GAGCTAAACGAGATGGATTCTAAACTGCAGCTGAACCCTGAAGGCCGCCTGTCGATTGTTCGGGAGAAGCTCTACAAAGGCATATCCTGGGTAGAAGTGGAGGCTAGAGTGGAAACCAGGAATTGGATGCAGTGTAAAA
Seq A exon
GTAAGTG
Seq C2 exon
GACGGAAATTCTAACCAAGAGGATGACGAATGGTCGGGACGTGTACCGAGGAGTGAACGCTCTGCAGGCCAAGATCAATCTGATTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018710-15-14,16-14-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PD(24.1=17.7)
A:
NA
C2:
NO
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:
ATCCTGGGTAGAAGTGGAGGC
R:
TCCCGACCATTCGTCATCCTC
Band lengths:
95-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development