RnoINT0070591 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80969642-80970392:-
Coord C1 exon
chr14:80970307-80970392
Coord A exon
chr14:80969898-80970306
Coord C2 exon
chr14:80969642-80969897
Length
409 bp
Sequences
Splice sites
5' ss Seq
GTGGTGCGG
5' ss Score
3.64
3' ss Seq
CTGATGGCCTCCACTCCCAGAAT
3' ss Score
6.3
Exon sequences
Seq C1 exon
GAACCCAGACAAGGACGAGAGGCCTTGGTGCTATGTGGTGAAGGACAGCGCGCTGTCATGGGAGTATTGTCGCCTGGCAGCTTGTG
Seq A exon
GTGCGGGCTCCCTGATAGGTTGGGGGTAGAGGAGGGGTGGTGCTCCCCGAGGACCCTCAGACAGGTCAGTGGAAGGGACTCAGTGGTGCTGTGTAGTTAAACTCTAGGGTGGTCAGCTCTCAGAGTGCTGTGCCCCAAGGCTCTCATGCTGGTAATATCTAGCCATTTTGGATGTGAGGTGGGGTCTCAGACTGTCGGAGAGACAGGACTTACTGCAGCAGGCGATCCGGCCTTGCCAGGGCCTGCGTTATACTGTCCTCATCTGTAGAGTAGGGGACAGAGGCTCCCAGGGTAACTGCTCTGAGTCTCAGGCCTGAGGAAGTGGGCTATGGGTCCAGGTAGGACCCCTGTAGCTCTTCCCTGTCTCCAGGGAAACCCAGGGGTATGAACTGATGGCCTCCACTCCCAG
Seq C2 exon
AATCCTTGGCCAGAGTCCATTCCCGAATCCCGGAGGTCCTAGCGACCCTGCCTGAGTCGACCTCAACTGCACGTCCGACCTGTGGCAAGAGGCACAAGAAGAGGACATTCTTGAGGCCACGCATCATTGGTGGCTCATCGTCTTTGCCCGGCTCACACCCCTGGCTGGCCGCCATCTACATTGGGAACGGCTTCTGTGCTGGGAGCCTCGTCCACACCTGCTGGGTAGTGTCTGCAGCCCACTGCTTCTCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:9
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=0.023
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(34.1=93.3)
A:
NA
C2:
PF0008921=Trypsin=PU(18.8=51.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACCCAGACAAGGACGAGAGG
R:
CAGTGGGCTGCAGACACTAC
Band lengths:
329-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]