HsaINT0075905 @ hg19
Intron Retention
Gene
ENSG00000019991 | HGF
Description
hepatocyte growth factor (hepapoietin A; scatter factor) [Source:HGNC Symbol;Acc:4893]
Coordinates
chr7:81386505-81388120:-
Coord C1 exon
chr7:81388008-81388120
Coord A exon
chr7:81386620-81388007
Coord C2 exon
chr7:81386505-81386619
Length
1388 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTATCTACTTTCTTCAATAGACT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GGCTTTTGTTTTTGATAAAGCAAGAAAACAATGCCTCTGGTTCCCCTTCAATAGCATGTCAAGTGGAGTGAAAAAAGAATTTGGCCATGAATTTGACCTCTATGAAAACAAAG
Seq A exon
GTAACTGACTTCTCCCTAAATATTGCATAATGAAATAAAGTATAATGAAATGTATGTTTGTAATTTCCTGCCAGAGTGGTCTTTCTCACTGATTTTTCTACTATATATGAGATATTTTATGTAGTCAATTCATCCATTAAGACAGTTGAAACTAGTATCTTGACTATTTTTAGTATGGTACTTTAAGGAGAACATTTTCAAAACTTTTCATAATCTTGATTCCCTTCCTCCCTCTGTTTATTTTTATTTTTATTTTTTTGGAGCATCTCCTAGAACTGGCATTCTCCATGTTCATTTTAGAAAGTGCTACTTTCTTTCATTATAAAGTTTAAAACACTTTATATTACAGCAAATTCTGAGTTTGCTATAGTATTTTGCATTTAACAATGTTGGATAACTAAATTATAGTGATGATTACTGATGATAACAAAATATGGAGATTTTGGAGAAATGAGTTGGGACTATGTTTCATCATATACTTGAAAAAAATATTTAAAGGAGGAATTGAGACCATATTATTTGCTGATTGCCTATTCTGGTGGTCTGATATTATGTTCACTAGGTATTTACTTTGTTCAAAAGCAGAATCAAGTAAATGAAATAATTGAAGAATGTTAAACAACCATGTCCTATTAAATTCAGATACATAACCTGGTACAATATATAGATGTTTTCAAGTTAATAGGGTAAATGTTTAAATAAAATTAAAAATAAATTTATGGTAGAAGTAAGTTAATCTTTATACACCTCAATAATACTACAAATCTTGAACATAATTCATGATCTAGTATAACACCATTCTTACTTCAAACTGTCTTCTAGCTTGCTAACAACTGCATGTACTATTATTTGGTAGGAATATATAGGTTATTACAATTTGGTTGTCCTATCAGCAGTGGAAATGTTTGCAAAAATATGGAAACTAATAAGCAAGCTACCTCATGCATATGCATATATAAACAAAAATCCACACAATTTTACTAAGAAGGACAAATTAATTATCTTAGGTAACTTTTTGAATTCAATATAGGTTTTAAAAATCATTTAATTTTTGTTTTTAATATTTTCTTAAAATGGTCTATATATTTGAGCAAATCATAATTGCTTGGCTAGCTGAGTATACAGACTATGTTAAGTACAGCGACTGCTCTCTGGAGCTATCTATGCATATATACACAAAATTAAAACTTCTCAATCATCTGTTTGTTTTGGATTATTCAGAAATGTGTTATTTTGAAAATACTAGTAGAAGCTTTAGGCAAGAAATTTCAATGTTATTTGAAATAGTTTACAAGAGTTAATTACTTACAGGTTTGAACGGAATTTTTTTCTTAAATACTGCATATGTTTTGCATAGTTGCAATAATTTTATCTACTTTCTTCAATAG
Seq C2 exon
ACTACATTAGAAACTGCATCATTGGTAAAGGACGCAGCTACAAGGGAACAGTATCTATCACTAAGAGTGGCATCAAATGTCAGCCCTGGAGTTCCATGATACCACACGAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000019991-HGF:NM_001010934:3
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=0.002
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=FE(44.2=100),PF0301514=Sterile=FE(42.2=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
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTTTGTTTTTGATAAAGCAAGA
R:
TCGTGTGGTATCATGGAACTCC
Band lengths:
222-1610
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)