MmuINT0077566 @ mm10
Intron Retention
Gene
ENSMUSG00000028864 | Hgf
Description
hepatocyte growth factor [Source:MGI Symbol;Acc:MGI:96079]
Coordinates
chr5:16564787-16566861:+
Coord C1 exon
chr5:16564787-16564899
Coord A exon
chr5:16564900-16566746
Coord C2 exon
chr5:16566747-16566861
Length
1847 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTTCTCTGTTATTCAATAGACT
3' ss Score
8.15
Exon sequences
Seq C1 exon
GGCCTTCGTTTTTGATAAGTCAAGAAAACGATGCTACTGGTATCCTTTCAATAGTATGTCAAGTGGAGTGAAAAAAGGGTTTGGCCATGAATTTGACCTCTATGAAAACAAAG
Seq A exon
GTAACTGCCTTCTTCCTAAACATTCAATAAAGAAATGAGGGATAAGATATTCTTGGTACTCCTTGCCACCCAGGTCTTTGCTGTGGATGTTTTGGTCAGATTCTGATTTGTGCCACAGTCATTGAATAAGACTGAGGAGACTGGAGCCTTGACAATATGATGACTGTCAGTGAAACAACTTAGAGAAAGGAGATGCTTTCTGGACTTCCCTTCAATTAGTTCCCTCTCCCTCGTCAGCTTGTCTTTTGTGCATGTTCTTCATATTATAACATGTCATTTAGGCTACTAGATCAGGGTACCTCATAATGTGGCAAACTGTAGGATTAAGATAGTATTTAAGTTATAATGACTTAGTATAGCTCATGTCATAATGGTTGTTGATAACAGAGCATGGACATTTGGAGGGAATAAGTTAAATTCATATAAACATGCTTAAAAACTGGTTTGAATGATGAGCTGGAATTGTTAATTTATCAGTTACATGGTGTCATATATGAATGATTTGGTATATGAAGTATTTATATAATTTAATAGCAAAACTATATTAATGAGATAATTATAGAATAGTAAATATACATTTTACAAATTAAATATTTTACCATGTGAAATAGCAATTATGAATTGAATTTAAGACAATAATCCTTTCTTATTTGTTTTCTTATAAGAACCTATTATTTCCCATTGAATTAGAATATAGATGCCAAATATAGACATTTTATGCCAATTGCATGGATATTTAAATAGAAGCTAATAGTAGAAAATAGGAAAATTTTACATATCTAAACAATCCCACACATCTGAAGTCTAATTAGTGATCAATCATGAGTCCTTTTTAATTCAGTCTTCTTGTTGGCTAGCTGCATATCCTATTGTCTGGTAGCTAACATTCCCCTGGTTAGAATTTACATTATGAACTAACCAGTACCCTGGAGCTCTTGACTCTAGCTGCATATGTATCAAAAGATGGCCTAGTCGGCCATCACTGGAAAGAGAGGCCCATTGGACACACAAACTTTATATGCCCCAGTACAGGGAAATGCCAGGGCCAAAAAAAAAAAGGGGAATGGGTGGGTAGGGAAGTGGGGAAGAGGGTATGGGGGACATTTGGGATAGCATTGGGAATGTAATTGAGGAAAATATGTAATTAAAAAAAGGTGGAAAAAATAATTTAGTTACTTTACAAACTGAGCTGTTAATAGATTAGGGGGAATAATAATCCAATGTAGTTATACTATGCACACACACACAGAGACAGAGAGAGACAGAGAGACAAAGAGAGACAGAAACAGAGAGACAGAGACAGAGAGACAGAGTCAGAGAGTTAGAGTCAGACAGAGACAGGGAGATAGAGATATATTGAGAAAAAGAGAGGGAGACAGAAAGACACACACAGAGAATAAAAGAACAAAAGAAAACACACCCACACAATTTTACTGAGCTAGATAAGACAAATCAGTCTTATTTTTTTTATTTCAGAGTTTAAAATAGATTTTAAAAGTTACTTACATTTTGTTTTTAACATTTTCTTAGGTTTATTTATTCAATCAAGTCACCATGGCTTACCCGTAGCTTAATCCAAGTTAAGGATAAAGAATAACCTGAAGTTAGATTGTATCATGTATTCAAAATAAGAATTTGTGTCTATGTGATGTGTTTGTTTTGTATTATTCTGAAATGTGTTATGTTAAAAATACTAGGAGAAGCTTTAAGCCAGAACTTTCAGTGTTATTGGAAACCGTTTACATAAGTTAATGACTTACAGGCTTAAGTGGATTCTTATTTTATTTCTCCACTAAGAACAGCATGTGTTTCACATAGTTCTAACATTTTTCTCTGTTATTCAATAG
Seq C2 exon
ACTATATTAGAAACTGCATCATTGGTAAAGGAGGCAGCTATAAAGGGACGGTATCCATCACTAAGAGTGGCATCAAATGCCAGCCTTGGAATTCCATGATCCCCCATGAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028864:ENSMUST00000199581:4
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=0.006
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=FE(44.7=100)
A:
NA
C2:
PF0002421=PAN_1=PD(1.2=2.6),PF0005113=Kringle=PU(41.8=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTTCGTTTTTGATAAGTCA
R:
TGTGTTCATGGGGGATCATGG
Band lengths:
227-2074
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