RnoINT0070568 @ rn6
Intron Retention
Gene
ENSRNOG00000007027 | Hgf
Description
hepatocyte growth factor [Source:RGD Symbol;Acc:2794]
Coordinates
chr4:15439910-15440690:-
Coord C1 exon
chr4:15440544-15440690
Coord A exon
chr4:15440017-15440543
Coord C2 exon
chr4:15439910-15440016
Length
527 bp
Sequences
Splice sites
5' ss Seq
TCGGTGATT
5' ss Score
3.98
3' ss Seq
ACTATCTTTTGTCTTTTCAGCCC
3' ss Score
10.03
Exon sequences
Seq C1 exon
AAACAAAGACTTGAAAGACTATGAAGCTTGGCTTGGAATCCATGATGTCCATGAGAGAGGCGAGGAGAAACGCAAACAGATCTTAAACATTTCCCAGCTAGTCTATGGACCTGAAGGCTCAGATTTGGTTTTACTGAAGCTTGCTCG
Seq A exon
GTGATTTTCTCAGATTTTGTATTTTAATGGACACTAGATTTACTGAAATATTTTCAGTTTTTTTCCTCTGGCATGAATATTTATCATGTTACACATTCTGGATATGTATTTCTATGTCCATGTATATCTTTATGTGGACATATATTAAAAGGAGGTATCACATGATTTTCAAATGCCATAAGGAGATTTGGTGTAATATTATTGCAACCTTAAAATTGAAGTTTAATAAGCAATTTGTTTTTTATTTCTTAGAAAAATAAAGGTAATAATTATTTTATATAGTGGGCATTAATCAAAAACTTTCTAGTAAATGTTTCTTTCCTCTATGACTTATGCAAAGCTTTGTATTATACTTTTTCATATCTATATCTTATCACTATCTATCAATCTATCTACCTACCTACCTACCTATCTATCTATGTATAAACAAGATTCCCCTATGTCTTAATATTGTACATACACTGCATGTACATGTTTCTGTAGAGTTGTACCCCACAGAGTACTCACACTATCTTTTGTCTTTTCAG
Seq C2 exon
CCCTGCAATCCTGGATAACTTTGTCAGTACAATTGATTTACCTAGTTATGGCTGTACAATCCCTGAAAAGACTACTTGCAGTATTTACGGCTGGGGCTACACTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007027:ENSRNOT00000009763:15
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=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.9=100)
A:
NA
C2:
PF0008921=Trypsin=FE(16.1=100)
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:
ACTTGAAAGACTATGAAGCTTGGCT
R:
ATCCAGTGTAGCCCCAGCC
Band lengths:
246-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]