BtaINT0066334 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016723 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr3:51104164-51104848:+
Coord C1 exon
chr3:51104164-51104344
Coord A exon
chr3:51104345-51104665
Coord C2 exon
chr3:51104666-51104848
Length
321 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
ATCCGGCCTCTTCTCCGCAGACG
3' ss Score
10.81
Exon sequences
Seq C1 exon
GGTGAAGGTGGGCTGACGGCGGCTCCAGCGACCCTTGGAGAGGAGCGGGGAGCGCGCCCGACCACCATGCCGCGTTCGTTCCTGGTTAAGAGCAAAAAAGCTCACAGTTACCACCAGCCGCGCTCCCCGGGACCTGACTATTCCCTCCGCCTGGAGAATGTACTGGCGCCAGGCGGAGCAG
Seq A exon
GTGCGGGGAGGGCGCGGGCCGGGAGGGACTGCTCCCGGGGCCGTAGACTCTGCGTCCCGCCACGCCATCTCCTAGGAACCGGGGGAAGAGTTCTGAACCCCCTTTGCTGCCTTTTCTTGTTACCCACTGTTTGGGTTCCTTTCGGGCTCGTCGCCTAGATTGCCAAGGCCTCCCTGCTCTCGCCCTTGGATCCAGGAGGGTTCAGGCCAGGTCTGGGGAGAGCTAAGAGAGCCCAGGTGCCACCATCTGGGGGGACGCACTTCAGAACCATCGGGCCCAACCAGACCCAACCTGAGCCCCTATCCGGCCTCTTCTCCGCAG
Seq C2 exon
ACGGCATCTCGAGCACAGGCGGGGCGAAGGCGGAGCTCAGGGGCCGTGTGTCCCCCGAGTCTCAGCTGACCGAAGCCCCCGACAGAGCCTCCGCGTCCCCTGGCAGCTGTGAGGGCAGCGTGTGCGATCGGAGCTCGGAGTTTGAAGACTTTTGGAGGCCTCCGTCGCCTTCTGTGTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016723:ENSBTAT00000022231:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.821 A=NA C2=0.790
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCAGCGACCCTTGGAGAG
R:
CTGGAGACACAGAAGGCGAC
Band lengths:
342-663
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]