GgaINT0120893 @ galGal4
Intron Retention
Gene
ENSGALG00000008461 | HGF/SF
Description
hepatocyte growth factor precursor [Source:RefSeq peptide;Acc:NP_001025541]
Coordinates
chr1:10522406-10523223:+
Coord C1 exon
chr1:10522406-10522480
Coord A exon
chr1:10522481-10523076
Coord C2 exon
chr1:10523077-10523223
Length
596 bp
Sequences
Splice sites
5' ss Seq
TCGGTACAG
5' ss Score
3.7
3' ss Seq
ACTTACTTTGCCTAATTTAGTTA
3' ss Score
6.08
Exon sequences
Seq C1 exon
GAATAAGCATATCTGTGGAGGTACTCTGGTAAAGGAAGAGTGGGTTCTCACAGCAAGACAGTGTTTCCCATCTCG
Seq A exon
GTACAGTAGTCTGTAGTCTTGCAATATTAAAATACGTGCAATTTCTGTAACTCAGTAGCACATACTTCCATTTAAATGCAGCAGTTATCACTCCTGTTTGTCTTTAACACTGCTCTTTTGATGTCAAAATTCCTTAGAGGCCTTGGCACTTTCAGTTTTTTATCACTGTTAATCTAAAAGAAGCCTGGCTGTTTTACACAGGAGTACGAATGTTATCCAAGTGTAGTAGTTACACAGCTACCTCTTTGTGGAAATAATCTTACGTTTTTTTCTGAACTGGACAGAATGAAGTAGAAGTCCTGGGCAAACTTTGAAAAGTTTGAAGGTTCACACTTTACAAAGATTTAAATGCTTTCATTCTAGTAGAAAACAAAATCACATTTTAGTCACACTTAATGATGAAATTATGCAGTGGCTTCAGACCAAAAACTTATATTTGAGGATATTGATTTTGGAATAGAAATTGGCAATGTAAACTGACTTCTAGTGAAGCGTTTGTTAGTTAAGATCTTGTAGTATAATCATGTTAAGCAGAGCTTTTGGGGGTTATTTTATTATCCATGCAGCAAAATCCTAACTTACTTTGCCTAATTTAG
Seq C2 exon
TTACAAAGATCTGAAAGACTACAAAGCTTGGCTTGGAGTCCATAATATCAAAGGAAAGGGAGAAGAGAAGCACAGGCAAGTTCGGAATATCTCCCAGCTGGTATACGGTCCGGCAGGATCAGATCTGGTTTTACTAAAACTTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008461:ENSGALT00000039793:14
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(11.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(21.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTGGTAAAGGAAGAGTGGGT
R:
TTAGTAAAACCAGATCTGATCCTGCC
Band lengths:
190-786
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]