RnoINT0070583 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80966903-80968049:-
Coord C1 exon
chr14:80967901-80968049
Coord A exon
chr14:80967154-80967900
Coord C2 exon
chr14:80966903-80967153
Length
747 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GACCCTGGTCTCTGTTTCAGGGG
3' ss Score
10.61
Exon sequences
Seq C1 exon
ATGTGAGTGGATATTCCAACTCCCTGCTGGAGGCACTGGTCCCCCTGGTTGCTGACCACAAGTGCAGCAGCCCTGAGGTGTATGGTGCCGACATCAGCCCCAACATGCTCTGTGCTGGATACTTTGACTGCAAGTCTGATGCCTGCCAG
Seq A exon
GTAGGCTACTTCCAGCCCCCACCAGGATGACACAGATGGGATATTACTAGAATTTTCTGGCCCCCAGGGAGTCCAGGGCCGGCAGAGAGTCTAAGGCAGAAAGTCCACCCACTGTGGAGCACTTGAACTTCCTGGAGGGCATTCTTGCAGTAGGAGAGGAACTGTCTAAACAGATGGGAAAGCTAAGGACAGGCCCAGAGTCACACAGAGTCCAGATAAAGGCCCACTATCTAAACAACAGTCAGGGCTATCCACATGACATCAGACCTCAGAGACTACAGTGCTCTGTCCAGATTTCTCTGGGATCCTCAGCAATCAATCAATAGTGAATGCTTGTCAGGGGCTTCATAGGCCAGGCCGTGGTCGTGGTTACCTGTCGACCTGCTTCACCATGGAGAGGCTGTCTTATGCTGTTTTAAGCAGGCAAGGAAACTGAGTCTTAGAGAAATTGAATCCCTTTTATGAGGCGGTACAGGTGAGACAGGGTAGGGTGGATGGGACTTGATTCTGGGACAATCAGGGCTTCCTGGGGAAGAGGGCAGTTGTTCTGAGATGTAGAGAAAGGATGCAGGGTTGAGGAGGTGTTTCAGGTGGAGGCCTAGCACACTGGCTGGGGCTAAGCGTGTGCCTGCACTCCTCATGGAGTAGGACCAGAGCTGTGGGTTGTGGGTTGTACTTATGACTTAGGACGTTTGCAGGGTTGGAAGCCCAGATGCTCCTGAGTCAGGACCCTGGTCTCTGTTTCAG
Seq C2 exon
GGGGACTCGGGTGGGCCCTTGGTCTGTGAGAAGAATGGTGTGGCTTACCTGTATGGCATCATCAGCTGGGGTGATGGCTGTGGGAGGCTCAACAAGCCAGGAGTCTACACCCGTGTGTCCAATTATGTGGACTGGATCAACGACCGCATTCGGCCACCCAAGCGACCTGCAGCTGCCTCCTGAACCATGGTCTCCAAGGAGAGGATGCTCACAATTCCCTTTCTACTACCAATAATAAAAGTGTTGCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.9=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.2=73.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATATTCCAACTCCCTGCTGG
R:
AGCATCCTCTCCTTGGAGACC
Band lengths:
350-1097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]