RnoINT0070580 @ rn6
Intron Retention
Gene
ENSRNOG00000009572 | Hgfac
Description
HGF activator [Source:RGD Symbol;Acc:70909]
Coordinates
chr14:80968514-80969897:-
Coord C1 exon
chr14:80969642-80969897
Coord A exon
chr14:80968654-80969641
Coord C2 exon
chr14:80968514-80968653
Length
988 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTGCCAGCTTCCTGTGCAGCCC
3' ss Score
6.23
Exon sequences
Seq C1 exon
AATCCTTGGCCAGAGTCCATTCCCGAATCCCGGAGGTCCTAGCGACCCTGCCTGAGTCGACCTCAACTGCACGTCCGACCTGTGGCAAGAGGCACAAGAAGAGGACATTCTTGAGGCCACGCATCATTGGTGGCTCATCGTCTTTGCCCGGCTCACACCCCTGGCTGGCCGCCATCTACATTGGGAACGGCTTCTGTGCTGGGAGCCTCGTCCACACCTGCTGGGTAGTGTCTGCAGCCCACTGCTTCTCCAGCAG
Seq A exon
GTGAGCGCACTGGCCAGATCCCCAGGGCAACCACCACGAAGCCAGCCCTCCATCCCTCCTCACATGCTCACCCTTCCATTCTGCCCGAATCCATCCGTCCTCGGGGGCTACCCACGTGTCATGTTCTTACCTCATTCTATCCCATGGGACCCTACCTGTGACACACACTCCTCTCCAGCAAAGCACACTAACATCCTTCCGTGTGATGACCACTTTTCCTGATCCCCTAACACACCTTTTGGTCTCACTGTAGCCCAGTGCTTGTTCTGGGTACCAAGGTAGTCATGGAGCATCAGAGCAGGGCATCTCCTGCAGCGACCTTATATCCCTGTGCAGTGGGTCTGGAGGGGGCCACCATCCTGTCGTCTGCATAGACCTGCCTCTCCCAGAGCTGAGGAGTGGGGTGGAGATAAGGTGCCAGAGTCGGACACATGCCCCGTGTACCACCCTGCGTCTGTGTCTAGGTGTTTAAGGGGCACTTACCTGGGTAAGGAATCAGGAGGCTCAGTTATAACATGTAATAGAACCTCTAGGGTTACTGCACAGCCAGGGAAACTGAGGCCCAGCTCACTGAATGGGCTCCTAGGACTGAGAGCCTGAGGTCTACTCATGTCTCCAACCAGCCCCGAGACACCAAGACTGCCTGGACTGAATAGAAAAACCCCAGCAACCCCTCCTAGCCCCGTGTCCTGGGGGACAAAGCAGTTGCACCATGGGGTGCATTCTCAGAGCAGACCTCACCTAAAGGTTCCACTGGCTCACAGATGAAACCCATGAAGCTAGGGCTCCTGGGCCAGGGTTGCCGTGGCTCTGCCACCCTTGTCAGTCTTGATTCTGCCGTCACATGGGTTTAAAATGTCTGCAGACCTTTCCCAGGGCTGTGACCCTCTTGCTTGGCCATAACCAACAAGCACAGGGGCCAAGGTTGGGGAGACCTGATAGTGCCGAGGAGAGGGCTGGGTTCCACTCCTGCCAGCTTCCTGTGCAG
Seq C2 exon
CCCCCCCAGGGACAGCATCACAGTGGTACTGGGTCAGCACTTCTTCAACCGCACGACGGATGTGACACAGACCTTTGCCATTGAGAAGTACGTGCCCTACACCCTCTACTCGGTGTTCAACCCCAACGACCATGACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009572:ENSRNOT00000013257:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(18.8=51.2)
A:
NA
C2:
PF0008921=Trypsin=FE(20.1=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:
GCCAGAGTCCATTCCCGAATC
R:
GGCACGTACTTCTCAATGGCA
Band lengths:
344-1332
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]