BtaALTD0007404-1/4 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000030302 | EDF1
Description
Bos taurus endothelial differentiation-related factor 1 (EDF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001035307]
Coordinates
chr11:106322557-106323392:+
Coord C1 exon
chr11:106322557-106322717
Coord A exon
NA
Coord C2 exon
chr11:106323299-106323392
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
CAAACACACGTTCTCTCTAGAAA
3' ss Score
6.21
Exon sequences
Seq C1 exon
GGGCCGCCGGCCAGAACAAGCAGCATTCGATCACCAAGAACACGGCCAAGCTGGACCGGGAGACCGAGGAGCTGCACCACGATCGGGTCACCCTGGAGGTCGGCAAGGTCATCCAGCAGGGCCGGCAGAGCAAGGGGCTGACGCAGAAGGACTTGGCCACG
Seq A exon
NA
Seq C2 exon
AAAATCAACGAGAAGCCGCAAGTCATTGCGGACTACGAGAGTGGCCGGGCCATTCCCAACAACCAGGTTCTGGGCAAGATCGAGAGAGCCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030302-4-3,5-3,6-3,7-3-1/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.907 A=NA C2=0.469
Domain overlap (PFAM):
C1:
PF085235=MBF1=PD(41.4=53.7),PF0138117=HTH_3=PU(29.6=29.6)
A:
NA
C2:
PF0138117=HTH_3=FE(57.4=100)
Main Skipping 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:
GAGGTCGGCAAGGTCATCCAG
R:
AACCTGGTTGTTGGGAATGGC
Band lengths:
135-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development