BtaALTD0011928-3/4 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000008817 | LAMA4
Description
Bos taurus laminin, alpha 4 (LAMA4), mRNA. [Source:RefSeq mRNA;Acc:NM_001205965]
Coordinates
chr9:38713876-38716309:+
Coord C1 exon
chr9:38713876-38713932
Coord A exon
chr9:38713933-38713971
Coord C2 exon
chr9:38716158-38716309
Length
39 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAAA
5' ss Score
-1.5
3' ss Seq
ACATGCCATTGTACCACCAGGCT
3' ss Score
6.61
Exon sequences
Seq C1 exon
CGTGCAATTGTGGGGGAGGCCCATGTGACAGCATAACCGGAGAGTGCTTGGAAGAAG
Seq A exon
GTTTTGAGTCCCCTACAGGCACGGACTGCCCAACCATAA
Seq C2 exon
GCTGCGATAAATGCATCTGGGATCTGACTGATGACCTTCGGTTAGCAGCGCTCTCAATTGAAGAAAGCAAATCCGGCCTGCTGAGTGTGTCATCTGGTGCCGCAGCTCATAGGCACGTGAACGAAATCAACTCCACCATCTACCTCCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008817-13-8,14-8,15-8,16-8-3/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(1.8=3.0)
A:
NA
C2:
PF060089=Laminin_I=PU(11.0=56.9)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
GACAGCATAACCGGAGAGTGC
R:
CAGATGACACACTCAGCAGGC
Band lengths:
127-166
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development