BtaALTA0012029-3/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000008300 | FN1
Description
Bos taurus fibronectin 1 (FN1), mRNA. [Source:RefSeq mRNA;Acc:NM_001163778]
Coordinates
chr2:103892331-103893480:-
Coord C1 exon
chr2:103893391-103893480
Coord A exon
chr2:103892362-103892436
Coord C2 exon
chr2:103892331-103892361
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
CTCTAACCTCTCTTGGCTAGATG
3' ss Score
5.45
Exon sequences
Seq C1 exon
GTCTGGAACCAGGAACAGAGTACACAATCCAAGTCATTGCCCTCAAGAACAATCAGAAGAGTGAGCCTTTGATTGGGAGGAAAAAGACAG
Seq A exon
ATGAGCTCCCCCAGCTGGTAACCCTTCCACACCCCAATCTTCATGGACCAGAGATCTTGGATGTTCCCTCCACAG
Seq C2 exon
TTCAAAAGACCCCTTTCATCACCAACCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008300-45-48,45-47,45-46-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.527 A=NA C2=0.821
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(27.2=71.0)
A:
NA
C2:
PF0004116=fn3=PU(50.0=23.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTGGAACCAGGAACAGAGT
R:
CAGGGTTGGTGATGAAAGGGG
Band lengths:
120-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development