MmuINT0077560 @ mm9
Intron Retention
Gene
ENSMUSG00000028864 | Hgf
Description
hepatocyte growth factor [Source:MGI Symbol;Acc:MGI:96079]
Coordinates
chr5:16119574-16120856:+
Coord C1 exon
chr5:16119574-16119648
Coord A exon
chr5:16119649-16120709
Coord C2 exon
chr5:16120710-16120856
Length
1061 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CATGTTAATTTTCTAACTAGAAA
3' ss Score
6.71
Exon sequences
Seq C1 exon
AAATAAACATATCTGTGGAGGATCATTGATAAAGGAAAGTTGGGTTCTTACTGCAAGACAATGTTTTCCAGCCAG
Seq A exon
GTAAGATGACTATTAAAGCAACACTTGTTTGGGGTATTTAAATGAGTCTTCTATTTTGACTTTGATATCAAGCATTTATTTTTTACAAGAATCTAATTAAAATCAGTAAAGCAATTCCTTTAATTTAAACTAAAAGCGTGGTCTGTGTGCACATGTGTGTGTGTGCGTGCGTGCGTGCGTGCGTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTGTGTATAGTTGCCATGTCTTGCATGTTGAGGTCAGAAGACAACTTGTGGGAGTCAGTTTTCTCCATGTGGGTCTCAGTAATCAAATCGAGACTGCCTTGTCAGCCTTTCCTTTTAAAATTTACTTATGAACATTGGCTGCAGTTATATTTCCATATTTAGTGCTAATTCGAGGTTTTCCTGTTCATTCAGTTAACTGTTTTTATGATTGGCTTAGTCTTACTTGGGAAAATGAATTTTTTAAAATTATGTAAACAAATCATGCCCCTGCTTCCCATTTGCATTCTTCATTTCTGGGTAGAAACACCTTTCTTGACAACCAGCAGGCTTCCTTGAATCCCTGCATTGCATTTTGTAGATAGAGACAGCATTAGGAGTAACTTGGGGGTAATTTCAAAGGAAATTGCATCAGCAAGGATAAGGAGACTACACTTGGAGCTTGCTTCTTGCTTCTCTTCTTATCTCTTGTTTTGGAAAAATCTTCAATCTTAGTGATAAACTGAATATATATGCTGAAAGGAAATGATATGTATAATCATATTATAATTCGTGTAAAGGACAAGAGGATTTTAAAAATAGGCATCTTACTTTATAGCAAATGTAATAAAACAGTCCATAATCATAATCATCTTTTTAGAGTTTCTTCAACTTCAAAGCCTTTCCTGTCTCAGTACACCTGTGGTGTTCAGAATCTCTCTGAACAAATGTGTTGTTTTTTTAATGTACTTTGAATCAAAATTTAAATGCAGGTGTTATCATTACAAGTTAAAATAACAATATAAATTAATAATACTCTACAATTATAAAGTATAGTTTGCATGTTAATTTTCTAACTAG
Seq C2 exon
AAACAAAGACTTGAAAGACTATGAAGCTTGGCTTGGCATCCACGATGTTCATGAGAGAGGCGAGGAGAAGCGCAAGCAGATCTTAAACATTTCCCAGCTGGTCTATGGTCCTGAAGGCTCAGACTTGGTTTTACTGAAGCTTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028864-Hgf:NM_010427:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(11.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACATATCTGTGGAGGATCATTGA
R:
CGAGCAAGCTTCAGTAAAACCA
Band lengths:
217-1278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: