BtaALTD0011928-2/4 @ 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
chr9:38713933-38713950
Coord C2 exon
chr9:38716158-38716309
Length
18 bp
Sequences
Splice sites
5' ss Seq
CAGGCACGG
5' ss Score
3.12
3' ss Seq
ACATGCCATTGTACCACCAGGCT
3' ss Score
6.61
Exon sequences
Seq C1 exon
CGTGCAATTGTGGGGGAGGCCCATGTGACAGCATAACCGGAGAGTGCTTGGAAGAAG
Seq A exon
GTTTTGAGTCCCCTACAG
Seq C2 exon
GCTGCGATAAATGCATCTGGGATCTGACTGATGACCTTCGGTTAGCAGCGCTCTCAATTGAAGAAAGCAAATCCGGCCTGCTGAGTGTGTCATCTGGTGCCGCAGCTCATAGGCACGTGAACGAAATCAACTCCACCATCTACCTCCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008817-13-8,14-8,15-8,16-8-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No 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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
AGGCCGGATTTGCTTTCTTCA
Band lengths:
110-128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development