GgaINT0075169 @ galGal4
Intron Retention
Gene
ENSGALG00000015623 | HGFAC
Description
HGF activator [Source:HGNC Symbol;Acc:HGNC:4894]
Coordinates
chr4:81497828-81499826:-
Coord C1 exon
chr4:81499686-81499826
Coord A exon
chr4:81497977-81499685
Coord C2 exon
chr4:81497828-81497976
Length
1709 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
CTCTGGGAATTTTTTTAAAGATA
3' ss Score
3.93
Exon sequences
Seq C1 exon
CCTTGATTAAGCTGAAGAAGAATGGCCAACGTTGTGCCGTCAAATCCCAGTTTGTTCAGCCCATCTGCCTGCCAGAAACTAACACAGTTTTCCCCGATGAGTTCAAATGTCAGATTTCTGGATGGGGACACAAACACGAGA
Seq A exon
GTAAGTGAAATGACAGAGGTGGTATCTGTGGAAAACACTGATGAAAACTGAACAAAATGCTCAAGGATATGTTGCACAACTGGTAGTTCTGTAAAATATTTTCCGAGGGACTTCTGATGAAATTACCTTCCTTTAGATGTTTCTATTATTTACATCTGAAATAGTCATTCCAAGCCCTCTTAATAGTCCCTGAAATTCGGTGAGTGGTTCACATGAACAAGGAATTAGTGGAATGATGGGAGCCTGGAGCAAGTAGCTTAGCTGTAGATGCCAAGAACTGTTAAGTGAATCCTACTCCAGGTTTCTCAAGGTAGATATTAAAGACTGCAAACCAAACACAATCAGTTTACTGGTCTGTGTTGGAGGCAATCTTTAGCTTCACCAGGCAGGAAACCTTGGAAATATCTACTGGAAAAAGCTGGAGGGGCTTTGGGCTAGTAAGTGCTTACATTCAGTTTAAGAAAAGCAAAAACGAAATGCTTCATCTTTCTCATCCTTTGAGATGAGGAATTTCAGGATTGTGAGATATGGCCATGATGCCTTGATGAGGAAATAGCAGAGATCTGCATAGATAGGTGAAGGAAGTTGGAGACCTGTCCTCCTCATATTCATTAGAAACTCAGTATGAGCAAAGGTTGTCCTAATCTAACTCCGTGATTTAAAGAAAAAAAAGTGTTTCTACAGCCTTTAACAAATTTATGATTTAGAATCATAGAATCACAAGGTTGGAAAGGACCTACAAGATCATCTAGTCCAACCATCCTCCCATTACCGTTGCTACCACAAGCCACTAAACCATATCTCATAGCTCCTCATCCAGACGCCTCTTGAACACTGACAGGGATGGCGACTCCACCACCTCCCTGGGCAGGCCATTCCAGTGCCTGACCACTCTCTGAGAGAAAAAGTTTTTCCTTATGTCTAATCTAAATCTCCTCTGGCACAACATGTGGCCATTTCCTCAGGTCCTGTTTGTTGCCTGGGAGAAGAGGCCAAAACCCTCCTCATTGCAACCTCCCTTCAGAAGGTTGTGGAGTGCAGGTCCCTCTGGATGGCTTCCCTTCCTTCCAATGTATTGACTGCACCACTCAGCTTGGTGTCACCCGCAAACTTGCTGAGGGTGCACTCGATGCCATCATGTATGTCACTGATGAAGATGTTGAAGAATACCCATCCCAAGACCGACCCCTGAGGTACACCGCTTGTGACCGGCCTCCACCCTGACACAGACCCATTGATCACAGCCCTTTGGCTGCATCCAGCTAAACAATTCCTAATCCACAGAACAGTCCATCCTTCAAATCCATACCTCTCCAGATTAGAGAGAAGGGTGTGGTGAAGGACCATGTCATTCACCGTGACTAAGAAATCCATGAGGACGCTGGCAGTATTATAAAATTATTATTTAAAATCACATCAGGAAAGAGGAAACAAGAATGCTGGAGAAGTGTTCATGGCCCCTCGGAAAGGAAACAAGCTGAAGTGAACTGATGCTTGGGCATGGAATACTGCTATTTTTAGTGGACGTGGACTCTGACTGCAGAATTAGGAAATGATCTGATCACTAAGAATAGTTGTTATCTTTTGAAGATAACACATGACGTGCTAAGTTTGTTTTTATGTTATATCTGTCTTGTGTTGAGATTACATATTATACTATTTGCATTTTGTAAAAATTACTTTTTTCCTCTCTGGGAATTTTTTTAAAG
Seq C2 exon
ATATAACTGGATACTCAGATGTACTGCAAGAAACATTGATTCCACTTATTCCTGAGGAAAAGTGCAGAAGCCCTGAAATTTATGGAACAGAAATCAGTGAAAATATGTTCTGTGCTGGCTACTTTGACAGCAAATCTGATGCTTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015623:ENSGALT00000025185:12
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(20.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATTAAGCTGAAGAAGAATGGCCA
R:
ATCAGATTTGCTGTCAAAGTAGCCA
Band lengths:
278-1987
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]