RnoINT0070573 @ rn6
Intron Retention
Gene
ENSRNOG00000007027 | Hgf
Description
hepatocyte growth factor [Source:RGD Symbol;Acc:2794]
Coordinates
chr4:15487770-15493166:-
Coord C1 exon
chr4:15493052-15493166
Coord A exon
chr4:15487913-15493051
Coord C2 exon
chr4:15487770-15487912
Length
5139 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
GATTATCATTTTAAAACTAGCTT
3' ss Score
2.65
Exon sequences
Seq C1 exon
ACTATATTAGAAATTGCATCATTGGTAAAGGAGGCAGCTATAAGGGGACAGTATCCATCACTAAGAGTGGCATCAAGTGCCAGCCTTGGAATTCCATGATCCCCCATGAACACAG
Seq A exon
GTAAGAACAGCATGAAGAAAAGAGGGCCAACCTTACCTGTCTGCTTGTGAACAGGCACTTATTAGTCCTCTGGGATAACACTACTCCATCACCACTTGTTCAATACTGCTGAATCGCATAAGGCCAAAACTTACAGTGAATTCAGGATTAATTAGTACAAACAGATTTATAAAAATTATTACTTATACCTGGAATAACTTTTTTTTAAATCTCAAGGTCTCAATTTGTAGATGTTGTTGGAAATGATTCTCTCTACTTTTGCCTTGAGAGGGTACTGTGACTTCACAGGGAAGCCATGATTTGGACCTCTGGTCTCACAAAGGGTGTCTTTAAATCTCAGTAGATCTCAGCTTTGGCTGCATGTTAAAATGGCCCACTACACATCTTGGAATGTTTTACTACACAAGGTACAAACAGACGAATGAAATGACAGTCTCCAGAGTAGGGATCGGGACAAGGCTCCAGAATATCTGGGGCTCCTTGATTCCTTCCAAAGTAACAATAAAGCTAAGACCCACTAGTCAGAGCTCTTTTAATCCAGGTTGACCAGTTGCCTCATCTTTATCCTACCTGTTGACTAAAGTCTTGAGAAATACTCTTTTCTTGGACACTAGAAAAATAGTATTGAAGATCAAAAAGACAATATTCATAGCTTATGAGATTTTAATCATCATGGAGAAAAACATAAACATTTTATAAGAACTAGAGAACTAAATGTGTCCATGATCTCCAGACCTATTTAGTAAGAACTCAAATACTTTAAAATAGTTTTATCCAGTTAGAAACTTTACTAGAAGGTTTAGTTTACCATGTCCAAGGATGGAGTAGACAGTTAACTGAACCGTTTCAAATCCTTAGTTCAGGGTCATACAGTGTTGGTAAGGGGCATTACCAGAGTACAAATCTGGCCAGTTTCAAAAATCCAATGTGTGCAGCAACCTTTCTACATGATATCTTCGCTCTATCCATAATATATATGGTATGACTTGTCTGTAATAGAAAAAGATAATATTTACTCTTTTCTACTTTTGAAAAGAATATGGCTGTAAAATTATTGATTCTTTTTAGTAAGCAGGTATGAATTAACCAACTGACTCACATATAAAGTTAAGTTGTCCCATGCTCTAATGAAACCTCTGGGCTTTGCTTTATGTACCCTAGCTAGTAACTCTCCAAGTTAATGCGATCTGTTGTATTTCATTAATAGGAAACAAAATTTTTCCAAGTTATGACAACAATTATAAAGGAATACCTCTGAAACATGAAATTGTCTCTAGCTTAGAAAGTAAATAATACAATTAGTTTTGTTCTCCCTTCTGGGTGTACATACTGAAGAAAACCCACTGGTCTAATGACTAGGCATAAGTGTTTATTAGCAAAGGAATACCATCAAAATGAACCCTCCCTCAGAGCAGGAGAATGTGCTAGACTCCCTAGCAGAGGATTTATTTCAACCTAAATTCCCTATGATTGTCATTCTCTGCTAGATTATTAGTAAATGTGAAATAAATCTCCCTGGGAACGAGCTTTCCTATCCAATCGGGTATTTTGCCAAGGAACATTTCCTTGCAATTTAGAAGTATACAGTGGAAGATATCTTGTATATTATTCAAATCCCTTTTTTACTTAACGAGAGCAATATTTAATTTTCATCAATTAGCAGTTGTGTTGGAATAGCTTCATGATAGCTTAACACTTTAAAATTAGGTGCTAACTAAAGATTAATTTTATGGGTAATGAGAAAAGAAACACTTTTTTTTGTCTAGCAGAGTGATTTATTGTTGACTTTCTAAACAGAAATATTTTACAAATGGCTTAATGGAAAGATGATGATAGATGTTGAAATTAGTATAAAGCTTAATAGAAAAATCAGGTGACCCGATATCTACATCTGTATCCTTCAGTGGCCTTCTAGCCTTCTTCATTAGTGAAGCAGATGATAGAACAGATCAAGTTTCCTACGCACACTGTTTATATTAAAAGACAGAAGTGGGTGCACCCAGAAGATCTAGTTTATGGTTTAGAATATATTTGGACATAACCCAGTTTTAAATATCTTTTTCACTTATCTCTCTTAAACTTTGCTAAGAGCAAGGGCAGAGATAAAAATAGCATCTGTGTGAGTAACAGCTCAGTACAGGCCCCACAGCCTGGCACAGGCCTTTTGTGTAACACATTCTCAAAACATTTGTCTAACGAGCACCTAAGAGGAAGAGTGAGCGAGGCTTCATGCCCTGGCCAAGCATGGGATGTTGAAGATAATCAGACGGAACACCTTGCATACAAAAGAAAGGCATCCGGTTTGAGGGAAAGGTCAAGAACACCAAATAAAGAAACTCTTGAGTCTCTTTGCCCTAAGGAGGGATTTGAGGTGAAATTGATTCAAAATTAGGAAAGCAACTACATCTCTTTTCCTCATTTTCTGAGTTCACCTCCAATGGGAATTTATTTTTTTCTTCTTTTGCTTATCTTTAGTTTAAATTTCTGTTTTTCCCTCTGACTTTTCCTACTTAATATTTTTCTTAAAAAACAAACAAACCAAACAAGTGAACAAAAAGACTATGGTGTTGCTTTCTCACAACATTTTTTTTCTGCTCTAAGCCTCACCTTTAAATCCCAGTTCCACATCCTATCTGTCTCTCATTGCAAAACAGACAGGCTTCTATAAGCTAATAAAAATAACAAAATGAAATATAATAAGATAAAACAAAAACTATCACATTAGATAATCTAATTAGTTGGATAGGGAATACAAACAGAAGGACCAGAGCAGAAATCAGGGACCTACTTGTCTGCACACTCAGGCATCCCACAAAACAAGAAATTGAAACTACATATGAGGAGATCCCAGTTCAAATCTGTGTAGGCCCAGTGCATGTGGCCTCAGTCTCTGAAATCACTAGTGACTTATATAAAATATTGGTAATAAATACTTGTCTGAGGAACTTCACTTTCACACCAGCCAGTTGAAATGTATATATATATGATACAATGATTACTAATACCTAATATTACAACTACTTTTTCCTAACATTTAGTCACAGTAGAATTTTTTTTTAAATCAGTTTGGTTGATGAGTTACTTCGTCAAATATACAAAGCAAATAACAGTTTAATTTCTGCCAGAGAAGTATCCTGTTATAAATTCATTATAACATTTGGAGAAGTGCCAAAAATGAAATAAAATATATTTCAGGCAATAATGCAAACACAAGATGCATGCACAAAATTCTAGAATTATGGGCTCTGGTGAAAAAAAAGACAAATGGCTTATATTTTGAAAATCAATTCTCATTACACCTTTCAAAGTTGTCACTAACTTTAATTATATTAAAGTTTCTGTCAGTCACATGACCTAATACTTTATTTCTATTTCTCCTATTTAAAATGCTGGTGAAGTAAGGATATAAACACTTTATTGGGATATACTTCGCAACTGCTTAATTCTTCCAATGCTAGTATGGTTTCTTGGACATGTTTAGTAATATTGTAGACTAGACTATTTAATTTTTGATCACTGATTTATGTGTTCAGAAGGTCTGAATCTTTAGTGCTAAGACAAAAGCTTTCCCTTGCAAAATGTTGCTTGGAATAGGATGCATGTCAGTATTCATTGTGTGGTTTAACATCTTTACCTTTTTTTAAAAATAGATTTCCTCTTATTTTCCTTTTTGATTAATATATAATAACTTTAAGTCTAGTATGTGATATTTTGATTCATGCATATGACCAGCTCAGGATAATTAGCATATCCATTTCCTAAATACAATGTCACTGGATAGAAAACACATTTGAATCATATTTACTGGGAGACTTCAATGTTTATTCTCTGTATTCATGCAGAATTCTGAGGCCAATAAAAGTAGAAACAACTTCTAGCAAAAGCCCAATTAACTACTTACTATATGATTGGGTTGAAAAGTTTTACTTATATGTCCTATTGAGGAGTGTCTTCTCTTATGATGTTCTGTAGAAGACAAATATAGGATCCAATATTGCAAACATTACAAAAATAAAAGGCTTTCACCTTTTCTCTTGCTGGAGGATACTTCTGGGCCACAGAGTAACATTGGATCGTCAGATATTCTACATGCAATTACTAAATTGATCTCAATACACCCAAAGACATACACTCATGGGCTAAAACTGAGAATATCAAATCTCAATCTCAGCCATCATTATCAAAAGAAATTTGAAGGAAACAAGCCATTTGTTTCTTTGTTATAACAATGACGATGGATAGGGCGTGCTTAATCACAGTTAATATATTGTTAATATTTCAAATGACAACTAATCACCTCCTCCACCTCAAAATAACCATATGGAGTCTAAATTGTTACAATCTAACAAGCCCAGGGTTTTCTTAGAAAGCTAATGCTTTGGAGCAGACTAATTATGTGCTAGGGTCTCACAATTCATAGCGGCAAAGAGCCAAGAGTGGTTTTCAGGCTTATTTTGATCCTGAATTCTTCATTCATTCTGTACTATCAATCTTTTTCTCAGTTGTGAAGAAACAAAATTTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAGGAGGGAGGGAGGGAGGGAGGGAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGTTTTTATCAGGAAAGCAGTATACAAGCAAAAAAAAGGACCCTGGATCAGCAGTGTGAGGATGAGCTCTGGCGAGACAACTGCAGAGGTGACTCAGTGTTTCCTAGGCAGCCTTGTCTGAGCATGTGTTGTGATTGGACTGTTAAACTTGTAGTTTATAAAACACAATTGTATTTCAGGATATTTGAGCTTGAGGAAATTCAGAGACTAAAAATTATTAATTTGACTCGGGATACAGACATTCTCAATGAGTTAATGCTTTGGAGGGGTTAAATTATGTGCTGGGGTAAATTTGAATAATATTCAAGTATTTTAAGAATATTGAGAAATCGAACTACAATTACACAGAGTTACATGCGATAGAAGAGTTTCTCTACGTTTGGGGAAAAGGTAGCTAGTATAATTAATAGGTCAACACTAAAGTTGCATGCTCTTATACTGTGATGATTATCATTTTAAAACTAG
Seq C2 exon
CTTTTTGCCTTCGAGCTATCGCGGTAAAGACCTACAGGAAAACTACTGTCGAAATCCTCGAGGGGAAGAAGGGGGACCCTGGTGTTTCACAAGCAATCCAGAGGTACGCTACGAAGTCTGTGACATTCCTCAGTGTTCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007027:ENSRNOT00000009763:4
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:
PF0002421=PAN_1=PD(1.2=2.6),PF0005113=Kringle=PU(41.8=84.6)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=91.8)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]