HsaINT0075894 @ hg19
Intron Retention
Gene
ENSG00000019991 | HGF
Description
hepatocyte growth factor (hepapoietin A; scatter factor) [Source:HGNC Symbol;Acc:4893]
Coordinates
chr7:81335603-81336680:-
Coord C1 exon
chr7:81336606-81336680
Coord A exon
chr7:81335744-81336605
Coord C2 exon
chr7:81335603-81335743
Length
862 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAG
5' ss Score
6.18
3' ss Seq
ATTTTTTTCCTTCAAAACAGAGA
3' ss Score
7.7
Exon sequences
Seq C1 exon
AAATAAACATATCTGCGGAGGATCATTGATAAAGGAGAGTTGGGTTCTTACTGCACGACAGTGTTTCCCTTCTCG
Seq A exon
GTAAAGTGTTTTTAAAACTAGTATTATTTTGAGCCTTTAAAATGTGTATGTCTTCCACTTTGCTCTTAAGGTTATAATATGTATTCATTTTACAGAGATTCACAAATGGGGTGAACAAATTATTTCATTTTTAGAATTTGGCTTACAAAACTTACTTTGACTTCACAGATATTTACAAGACACTACTTCAGTTCACCTCTTTTCACAATTAGTGTTACCCTCAGTTGGGGAAAATTTTGCTAGAATTATGTAAATGTTTTATATCCCAACTTTCTACTTGTACCCTGTATTTCTAGATATAATTCTTTTTTTTTTCTAAATTGTCAATAGGCTTTTTTCAGTCCTCACTACTTCTTTCTCCTGTAGAGTCAGCCTCAGGATCATCCTGGGCATAATTTTCAATGAAAATTAGCCTAAGGAAAAGATAAAGAGGCAGCATTTGTAAACTTCCTTCCTGCTTCTCAGCAAGGTCACTTTGATTTTGTTTGTAGAAAACTTCAACCCCTGTTACCAAACCAAATATATACACAGCTGACATAAACAAAGCAAAATTTGCAGAAAAAATTATAATTCATGTAAAGTGCTTTACCTGAGCATTTTTCACAAGTGACTTCTAGCAAGCATAAGCAAGTTTCTAAAATAGTCATTTAGAATCTCAGCAATTTAAAGCCTCTTTCTGCTTATGTATGTTTGTAGTATTCAGAATCTGCCATAACAAATGTGTTGTTCTTTATTATACTATGAATCAAATTTTAAATTTAGGTTATGTGCCTTAATAGTCTAAAATAACAATAGATAGGAATAATACTACAGAATTTGGAATTATTATGTTTTACATTTAAATTTTTTTCCTTCAAAACAG
Seq C2 exon
AGACTTGAAAGATTATGAAGCTTGGCTTGGAATTCATGATGTCCACGGAAGAGGAGATGAGAAATGCAAACAGGTTCTCAATGTTTCCCAGCTGGTATATGGCCCTGAAGGATCAGATCTGGTTTTAATGAAGCTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000019991-HGF:NM_000601:14
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(11.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.2=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:
ATAAACATATCTGCGGAGGATCA
R:
CTGGCAAGCTTCATTAAAACCAGA
Band lengths:
214-1076
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)