BtaINT0066335 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016723 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr3:51104666-51107172:+
Coord C1 exon
chr3:51104666-51104848
Coord A exon
chr3:51104849-51106690
Coord C2 exon
chr3:51106691-51107172
Length
1842 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GCCCTCTTGTGCCTCCACAGCCT
3' ss Score
9.34
Exon sequences
Seq C1 exon
ACGGCATCTCGAGCACAGGCGGGGCGAAGGCGGAGCTCAGGGGCCGTGTGTCCCCCGAGTCTCAGCTGACCGAAGCCCCCGACAGAGCCTCCGCGTCCCCTGGCAGCTGTGAGGGCAGCGTGTGCGATCGGAGCTCGGAGTTTGAAGACTTTTGGAGGCCTCCGTCGCCTTCTGTGTCTCCAG
Seq A exon
GTAGGGACCTGTTGGGGGCTCTGGGGCCCGGGGAGGGAGGCGGGGACAGGGACCCCGCGCTGAGCAATGAACCCGCGCGGCTTTGGGCACAGAAGTGCCAAATCGATTGCGGAGAATCTTTTCGAGAAGAGGGATTTGTTCTTGCTTCCCGAGTGGAGGCATTGGCTTCTCTAGGCCAGCGTCAGCCTGCTCGCGGGGGTCGGCTGCTTGGATCCCAGGCGACGGGACCTGGGCTGTTCATCCCTAACATTCATTGGCACGGAGCTAGTGGGCGAAAGAAAATAAATGAGTCGTTTCTTTAGGTAGCAATGTTGACATTTCGTTTTCTGACGAGAGATGATTGTTTACAAAGAGCCAGGATTCCAGAATACAGACCCCTCCCCGAGTCTCAAACAGAGACCTGGGCAGTCAGTGAAAAAAGATGTGTCGTTGTCTTGAAAAATTAAGCTCGTTTCCGCGGCTTTGGGCCTGGCAGAGATGGGGCCCCAAGCCGGACAAAAATCTCGGTCCCTCGCTAGGTCTTCGCAGGCGCAGATTGGGGGCCTATTTTATTTTTTGTTCTGCCGGGTTGGCCCGGCTTTGGGAACCAGTGCTTGTTGGTTTCATTTCCAGCCAGCAATCGAGTTTCGCGCAAACTGAGTGACTTGCGCGTTGGGTGGGGGCGAGTCTCCGGTTCCGGCGGAGGGGCATGGAGAGCGCAGGACCGGGATTCTGCTAAGGACCGGTTATTTCCAGATTCCATTTACCAGTTTTAAAAGATACCCCCAACCCCATCCCACACTCAGTGTGTGGATCTGGCTAAGCGAGGGCGTCTGGGAACAGGCCACCGGAGAGTCCTTCTTGGCTGTGCTGGACACCGCCCCGCAAGGACTGGGCGCCGCCGGAATCTCCGACGGAAACTCGAAGTGAGAAGCCACTTCTCACTGAAGTGACTAGCCTGAGCTGGATCTGTTCACAGAACTGCAGTGTTTGTGAACAGATCTGTAAATCCGTGTGTACTGAGGGGAAAGTGTATATTGGTAGCTGGTTTTAACAAAATTCGCAGGGGTGGGGGTGCAGAAGGCCGCTAATTCGGAAAGTTGTTCGTCTTGCAGGTGGTGGCTAAACCTTCAATCCTAAATTATTCTCTAAGAAATTCGTGTTTTGTTTTCTTTTTTGTCCCCTGTCAAACTACGATAGGAATGGGAACGGGGAGTATTTTGGCAAACAGATCAAGCCCCAAACCCCCTTCCCGCTGCCTCTTCGCTACCTGCCAACACTGGATATTTAATAACGTTGAGAGTGCTTACACCTTCCCGTTGTTTTTTTTTCCCCAGACACAAATGTCTCGGATAGGTCGGGCCATATTTTATTGGTCCTCGTCTCCCTCCCTCATTATAGATCCCAGGAAAGAAAAAGGACGGAGTGGGAACACGTAGGGGCCGGGAAAGCGCCGGCACTGGGCCCTCTGCCCGCAGGCTCGTCCAGGTCCGAAACAGTGGCCGCTTTCTCGTCCGGCACAGCTCGGCTCTGCTCCAAACGTTTGTAAAGCATGGCGCGCCCTTCTCTACGCGGCCGCCACATGTGCCGGTCAAGTCTAAAAAGACCCTCTTAACGTCGTGCGCTTCGGCTGTCCTGGCACAGAAAGTCCTCGCCCGATATCATTTTAAGTTTCTGTGTGCTGCCTTGCCGCCTCCAGTGGTTCTCGGAGGCCCCAGGGACCCGGCCAGGGTTTGAGCCTGGAGGCGTCCCTGGCACCCAGCGCAAGGGCCGGCGCCCCGGCGCCCCAGGGATGGGTGCCTGGCAGTTCCATAGACACACCGACCGGTTGACCTGACCGGACGCCCTCTTGTGCCTCCACAG
Seq C2 exon
CCTCGGAGAAGTCGGTGTGCCCGTCGCTGGACGAAGCTCAGCCCTTCCCCCTGCCCTTCAAGCCGTACTCGTGGAGCGGCCTGGCGGGTTCGGATCTGCGGCACCTGGTGCAGAGCTACCGGCCGTGCGCGGCCCTGGAGCGCGGCGCCGGCCTAGGCCTCTTCTGCGAGCGCGCCCCGGAGCCAGGCCATCCCGCGGCGCTGTACGGCCCGGAGCGAGCTGCGGGCGGCGCGGGGGCCGGGGCGCCCGGGGGAGGCAGCGCAGGAGGCGGAACTGCCGGCGGCGCGGGCCTGGGGCTCTTCGGCGACTTCGGGCCCGCGGCGGCAGGACTGTACGAGCGGCCGGCCACCGGCGGACTGTACCCGGAGCGCGGCCACGGGCTGCACGGCGACAAAGGCACAGGCGTCAAGGTGGAGTCGGAGCTGCTGTGCACCCGCCTGCTGCTGGGCGGCGGCTCCTACAAGTGCATCAAGTGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016723:ENSBTAT00000022231:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.790 A=NA C2=0.298
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCGCCTTCTGTGTCTCCAG
R:
CTCGTACAGTCCTGCCGCC
Band lengths:
358-2200
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]