BtaINT0066336 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016723 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr3:51106691-51107432:+
Coord C1 exon
chr3:51106691-51107172
Coord A exon
chr3:51107173-51107294
Coord C2 exon
chr3:51107295-51107432
Length
122 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCCGGCCCCACCCGCCTCAGGTG
3' ss Score
6.44
Exon sequences
Seq C1 exon
CCTCGGAGAAGTCGGTGTGCCCGTCGCTGGACGAAGCTCAGCCCTTCCCCCTGCCCTTCAAGCCGTACTCGTGGAGCGGCCTGGCGGGTTCGGATCTGCGGCACCTGGTGCAGAGCTACCGGCCGTGCGCGGCCCTGGAGCGCGGCGCCGGCCTAGGCCTCTTCTGCGAGCGCGCCCCGGAGCCAGGCCATCCCGCGGCGCTGTACGGCCCGGAGCGAGCTGCGGGCGGCGCGGGGGCCGGGGCGCCCGGGGGAGGCAGCGCAGGAGGCGGAACTGCCGGCGGCGCGGGCCTGGGGCTCTTCGGCGACTTCGGGCCCGCGGCGGCAGGACTGTACGAGCGGCCGGCCACCGGCGGACTGTACCCGGAGCGCGGCCACGGGCTGCACGGCGACAAAGGCACAGGCGTCAAGGTGGAGTCGGAGCTGCTGTGCACCCGCCTGCTGCTGGGCGGCGGCTCCTACAAGTGCATCAAGTGCAGCAAG
Seq A exon
GTGAGGCTCCCGCGCGCCTGGCTTGACCGGCCCCGCGCCCGCGCCCCACGGCCCGCGCCCAGCCGGCGTCCGCGCCCCTCGGCCCCTCTCAGCGGCCCTCTCCCCGGCCCCACCCGCCTCAG
Seq C2 exon
GTGTTCTCCACACCGCACGGGCTCGAGGTGCACGTGCGCAGGTCCCACAGCGGCACAAGACCCTTTGCGTGCGAGATTTGCGGCAAGACCTTCGGGCACGCGGTGAGCCTGGAGCAGCACAAAGCCGTGCACTCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016723:ENSBTAT00000022231:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.298 A=NA C2=0.109
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=58.7)
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:
AGGACTGTACGAGCGGCC
R:
AAGGTCTTGCCGCAAATCTCG
Band lengths:
249-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]