MmuINT0077572 @ mm9
Intron Retention
Gene
ENSMUSG00000029102 | Hgfac
Description
hepatocyte growth factor activator [Source:MGI Symbol;Acc:MGI:1859281]
Coordinates
chr5:35384202-35385113:+
Coord C1 exon
chr5:35384202-35384359
Coord A exon
chr5:35384360-35384938
Coord C2 exon
chr5:35384939-35385113
Length
579 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GTGGCCCCTTGGGCTCCTAGAAC
3' ss Score
5.73
Exon sequences
Seq C1 exon
GCTACTCTGTTCCTGCTACACCTCACGCCAGCTCAGGAGGAGCCATGGGGCGACAGGCCTGGATCTCTAGCCTCTGTCCCTTACCCAGGCCATGTCCCTTCCTGCTGCTCCTGCTGCTGCTGGTGGTGCCTCGGGGGGCCCAGCCCCAGGCTGGCAGG
Seq A exon
GTGAGCACTGCCCCTCTCCCTTGCATGTGGCCAAGGGTTCTCTATGCACACTCGGTTCCTGGGAAGAGAGAGGTCAGAAAGAGGGCCCCAGAGTGAGCTAGGGACCCAGTGTGGTGGCATAGTGGAGTGGAAGTTGTCATTTTGCACTGAGATATGGGGTGCTGGGCTAGGCTGGTCTGTAGTGCTTGGGCCTGAACTTGTTAGGATCCTCTTGTTGCCACTGTGTGGCCCAGGCCCCGTGAGTGAGTGGGGGGGGGGGGTCCTGGGGCTTCTGCTGCATTCCAGTGTTTGAGATGGGGTGTAGGAGACCTCAGAGTGCTTCAGCTGTTCCTGTCCACCCCAGGACTGCCCCCCAGGACTGAATCTCAAGGACCAGGGTGACCTGGGGCCCTGTGACTCTTAAGTTAGCACATTGGATCACTCAGATTCAGAAGGAAAGGCCAGAGGAGGTCTTGGGGACACCCACTGCCTCTTGGACCTGCCCTAAGGAGTCTCAGGTCTCTGGTGTATCCGACTGGTGGAGTCCAAGTGTGAAGGACTATTCCACACTGACACCTTTGTGGCCCCTTGGGCTCCTAG
Seq C2 exon
AACCACACAGAGCCCCCAGGACCTAACGTTACAGCCACCCCCGTGACCCCCACGATCCCTGTGATCTCTGGGAATGTCAGCACCTCAACAGAAAGTGCTCCAGCAGCAGAGACTGAGGGACCCCAAAGTGAGAGGTACCCTCCTCCCTCCAGCAGCAGCCCCCCTGGGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029102-Hgfac:NM_019447:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.184 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACTCTGTTCCTGCTACACC
R:
GGCTGCTGCTGGAGGGAG
Band lengths:
318-897
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: