BtaALTD0010194-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000017664 | HGF
Description
Bos taurus hepatocyte growth factor (hepapoietin A; scatter factor) (HGF), mRNA. [Source:RefSeq mRNA;Acc:NM_001031751]
Coordinates
chr4:39136442-39142670:+
Coord C1 exon
chr4:39136442-39136529
Coord A exon
chr4:39136530-39136569
Coord C2 exon
chr4:39142550-39142670
Length
40 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CCATGCTTTGATTTTATTAGTTG
3' ss Score
4.59
Exon sequences
Seq C1 exon
CTATCGGGGTAAAGACCTACAGGAAAACTACTGTCGAAATCCTCGAGGGGAAGAAGGGGGACCTTGGTGTTTCACAAGCAATCCAGAG
Seq A exon
GTACGCTACGAAGTCTGTGACATTCCTCAGTGTTCAGAAG
Seq C2 exon
TTGAATGCATGACCTGCAATGGGGAAAGTTACCGAGGTCCCATGGATCACACAGAAACAGGCAAGATTTGTCAGCGCTGGGATCATCAGACACCACACCGGCACAAATTCTTGCCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017664-5-7,6-7-2/2
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=0.171
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
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
AATCCTCGAGGGGAAGAAGGG
R:
TGATCCCAGCGCTGACAAATC
Band lengths:
136-176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development