MmuALTD0006593-2/2 @ mm9
Alternative 5'ss
Gene
ENSMUSG00000028864 | Hgf
Description
hepatocyte growth factor [Source:MGI Symbol;Acc:MGI:96079]
Coordinates
chr5:16078325-16082847:+
Coord C1 exon
chr5:16078325-16078412
Coord A exon
chr5:16078413-16078452
Coord C2 exon
chr5:16082727-16082847
Length
40 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
GCATATTTTAATTTTATTAGTTG
3' ss Score
3.21
Exon sequences
Seq C1 exon
CTATCGCGGTAAAGACCTACAGGAAAACTACTGTCGAAATCCTCGAGGGGAAGAAGGGGGACCCTGGTGTTTCACAAGCAATCCAGAG
Seq A exon
GTACGCTACGAAGTCTGTGACATTCCTCAGTGTTCAGAAG
Seq C2 exon
TTGAATGCATGACCTGCAATGGTGAAAGCTACAGAGGTCCCATGGATCACACAGAATCAGGCAAGACTTGTCAGCGCTGGGACCAGCAGACACCACACCGGCACAAGTTCTTGCCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028864-5-6,6-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.244
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=91.8)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCCTGGTGTTTCACAAGCA
R:
TTCTGGCAAGAACTTGTGCCG
Band lengths:
148-188
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: