MmuINT0077559 @ mm10
Intron Retention
Gene
ENSMUSG00000028864 | Hgf
Description
hepatocyte growth factor [Source:MGI Symbol;Acc:MGI:96079]
Coordinates
chr5:16611820-16613830:+
Coord C1 exon
chr5:16611820-16611916
Coord A exon
chr5:16611917-16613755
Coord C2 exon
chr5:16613756-16613830
Length
1839 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
GTAATTTTTACTTATCATAGAAA
3' ss Score
3.8
Exon sequences
Seq C1 exon
ATCCTGTAATATCCTGTGCCAAAACAAAACAACTGCGGGTTGTAAATGGCATTCCAACACAAACAACAGTAGGGTGGATGGTTAGTTTGAAATACAG
Seq A exon
GTAATTATGAGTGATCACAAATCACAATATTCTGAATATTTGTAAAACCGTATTTTCAGCCTATGATTGCAAGAAGATTGCTTCCCATACAAGACACTAAGCTGGGGACCAGGGACTGATTTCTGTCCTTACCAAACTGCATACACTGGACTATATAACAGCGTGTGAAGACTTTTTAAGGTTTAACAAGGCTTCCATTAATACCGATTTCATCTGACGCAGGTTCTGATGAACTAGAAGAAAATGACACAAAAGAGCTAATTTATACCTTTATTTTACCTTGATAGCTATTGTACATATATTAATTTTAAAATCTAGACTATTTTAAACATACATCGTCTAAGATGTTTTTATATAATCACAGAAATGGTCTATTTGTTTTTAGTTTCCAACATTAGTGAAATGAGAAACAGTAATGTTAAAGTGTTTCATTACGGAAATCAATGACTTATTAGAATAATGGGGTGGTTTTGGTTTTTGTAATTTGCTTGGATACAGAATTTTTAATATGTCTATTTCTGAAATCTCTTAAGAATTACTGATATGATCTATGTAAAATCAATATGCAAGTTATATAATAGAGAAACTTAGAACCGTATCATAAAAATTAAGTATCTGCCTTACATTGTTCATATCCTATGTATACTAGTCCACAGGTCCTTTTCAACCCAAGTTCTTAGTAACCACAGCTGTTTGGTTATTTTTCCAAAAATACACTGAAGGGAATAGAAGTTAAGACTCAATATATACTGTCATCTTCCTATGGGGTAAGCCATAAATAACTGCCCCTTCAGCTGAGAGTGTCTAGGATTGCCCTCTTGCAGCTTAAGCAGCTGTTCTCCTTGGAAATGAGAATTGTGGAAAGCTGTAGTCTTTCTACATTTCAGCCAAAAAGAAATTAATTTACAGATTTGGGGAATCAGCAACTAAATTCCCTAGTTCTTAATTCTGAAAAAATGTTTTAACAATTTCCTAGGTGGTTTATTTTCAAAATTATTTTAACTTTCATAAGTGAAGAACCAAAGTACTGATCTTACACTTGGCAATGTGTTCAAACCTAGCTGTACTTTGTCACATGAACCCTAAATGGTGAGACTGAGGGGATAGCTCACTGTAGAAAATAGTGTCTGCAAGGTCTTTAACACATCTAGTGCTGCACAAAAAAACAAACCCCAAAACTATTAAATAATGGCTGAGGAAAAATGGAATGATGTAAAAGATATTGGGCAGTTTATCCGAGTTCTTTAATGAAATCTCATATTTTTTTATATTCAAATGCTGATATTCAAACACTTCCACAGTTTTGTTAATTTAGATTATCCTATATTTTCAACATATATTGTAGACGGATAGAAGCATAAATATATTCACTGGAAGTATATACTGATGTGTAGTGACTATATTTTCTCTTGTAAAACTTGATGTCCTAAAATTTAGTCACATTGGAGAACAATCATTGATGCCACCATCACCCGATATCACCAAAGCACTGTAGTGTGTCTTTTTTGGTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGACTGTCCTGGAAGTCATTCTGTAGATCAGGCTGGTCTTGAACTCAGAAATTTGCCTGCCTGCCTGCCTCTGCCTCTCAAGTGCTGGGATTAAAGGCATGCATTACCACTTCCAAGCTTTTTTTTTTTTTTTTTTGTACTGTTGTGTGTCTTGTTCCAACTGAGTAGATTATTTTCATTTTCCTTGACAATTCATTTAGTTTTGATGAATGAAGCCATTGGATAACTAACTGGGCAGACAATATTTATTTTGTTTGTTTTTCTGCTAAGATCTTACTTGTAATTTTTACTTATCATAG
Seq C2 exon
AAATAAACATATCTGTGGAGGATCATTGATAAAGGAAAGTTGGGTTCTTACTGCAAGACAATGTTTTCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028864:ENSMUST00000199581:14
Average complexity
IR
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=PU(8.5=57.6)
A:
NA
C2:
PF0008921=Trypsin=FE(11.2=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types