BtaINT0071865 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017664 | HGF
Description
Bos taurus hepatocyte growth factor (hepapoietin A; scatter factor) (HGF), mRNA. [Source:RefSeq mRNA;Acc:NM_001031751]
Coordinates
chr4:39191438-39192487:+
Coord C1 exon
chr4:39191438-39191512
Coord A exon
chr4:39191513-39192340
Coord C2 exon
chr4:39192341-39192487
Length
828 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAG
5' ss Score
6.18
3' ss Seq
TATTTTAATTTTTTATTTAGAAA
3' ss Score
6.62
Exon sequences
Seq C1 exon
AAATAAACATATCTGCGGAGGATCATTGATAAAGGAAAGTTGGATTCTTACTGCAAGACAGTGTTTCCCTTCTCG
Seq A exon
GTAAAGTGAAACCAATATTTGTTTTAAGCATTTAAAAATATGTATGGCTTCCCCCTAGATTCCCCCTAGAATGTATAGTCATTTAACAGATATTCACCAGCATAGGGTGAACAAATTATTTTTATTTTAGATTTAGCTTATGAAACTGACTTAATAGTTATGAGTACTACTTCTGTCTACCTCTTTCCACGATTAGCACTACTCTCATTTGGGGGAAAATTTTGCTAGAATTATGTTAATAATTTTTACCCTAACCTCCTTCTTGAATTCTATATTTCTAGAGAGAAATTCTTTTTCTGAATTAGCAACAAACTTCCTTCAGTCCTCACTTCTTTCTTATGTACAGACAGCCTCAAAATAATACTGAGAATGATTTTCAGAGTAAATTAGCCTTAAGGAAAAGATAAATAGCATTTGTTAGCTTACTTCTTGATTCTCATCAAGATTATACTGATTTTGTTAGTATAAATCTTCAATCCTTATTAATAAGGCAAACATATACACCTTTGAGATAAAGAGGAAAACTTGCAATAAATTATAATTCTTGTAATATGCTTTACCTGAGAATTTTTCATAAATAACCTACTCTCTAGCAAGAATAAGCAAGTTGAAAAAATAGCCGTTTAGAATTTCAGCAATTTAAAGGCTCTTCCTGCTTATATGTTCTTGTAGTATTCAGAATCTTCCAATAAAAAATGTGTTGCTCTTTATTATACTTTAAACTTTAAATTTAGGTTATTTATCTGCCCTTGTAAGCTAATATAACAATACATATAAATAATATTACATAATTTAAAGTTATATTTTATATTTTAATTTTTTATTTAG
Seq C2 exon
AAACAAGGACTTGAAAGATTATGAAGCTTGGCTTGGAATTCATGATGTCCATGGGAGAGGAGATGAGAAACGCAAACAGGTTCTAAATGTTACCCAACTGGTATATGGGCCTGAAGGATCAGATCTGGTATTACTGAAGCTTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017664:ENSBTAT00000023490:14
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
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAATAAACATATCTGCGGAGGATCA
R:
CTAGCAAGCTTCAGTAATACCAGA
Band lengths:
222-1050
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]