RnoINT0070579 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80972600-80973456:-
Coord C1 exon
chr14:80973338-80973456
Coord A exon
chr14:80972781-80973337
Coord C2 exon
chr14:80972600-80972780
Length
557 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GTGGCCCTTTGGGCTCCTAGAAC
3' ss Score
5.74
Exon sequences
Seq C1 exon
CAGGAGGAGCCATGCGGCAACGGGCCTGGCTCCCTAGTGTCTCTTCCAGGCCATGTCCCTTCCTGCTGCTCCTGCTACTGCTGGTGGTGCCTCGGGTGGCCCAGCCCCAGGCTGGCAGG
Seq A exon
GTGAGCACTGACCCTCTCTCTTGCATGTGGCTAAGGGTTCCCTATGCACACTCAGGGTTCCTAGGAAGAGGCCCCAGGGAAGAGGTGAGGTGTGAGCTAGGGGCCTAGTCTGGTGGCCTAGTGGAGTGAAAGTTGTCATTCACACAGACAGGTGAGGTGCTGGGCTAGGCTGGTCTGTAGTGCTTGGGCCTGAACTTGTTGGGACCCTCTTGTGTGTAGCCCAGGCCCTGTGAGTGTGGGAGCCCTGGGGCTTCTGTTGCATTTCAGTGTTTGAGATGGGGTGTAGGAGACCTCTGTGTGCTTCACCTGCACCTGTCCACCCCAGAAGTGATCCCAGGGTTGAGTCTCAAGACCAGGGTGACTTGGGAGCCAGTGACTCTTAAGCCAGCATGTTGAATCACTCAGATTTGGAAGGAAAGGCCAGAGGAGGTCTTGGGGACACCCATTGTCTCTGAGCCCTGCCCTAAGGAGGCTCAGGTGTGGTGTATTTGACTGATGGGGTCCAAGTGTGGAGGATTATCTCATGCTGACACCACTGTGGCCCTTTGGGCTCCTAG
Seq C2 exon
AACCACACAGAGCCCCCAGGACCTAATGTTACAGCCACCCGCATGACTCCCATGATCCCTGCGACCTCTGGCAACTTCAGCACCTCAATAGGAAGTGATCCAGAGGGAGAGGCAGAGACCGAGGGACCCCAAAGTGAGAGGTATCTCCTTTCCTCCAGCAGCAGCCCTCTCGGGGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.820
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACGGGCCTGGCTCCCTA
R:
GAGAGGGCTGCTGCTGGAG
Band lengths:
272-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]