GgaINT0036700 @ galGal4
Intron Retention
Gene
ENSGALG00000005940 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr8:13085644-13086284:+
Coord C1 exon
chr8:13085644-13086056
Coord A exon
chr8:13086057-13086146
Coord C2 exon
chr8:13086147-13086284
Length
90 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
GCCTGCTCTCTCCCTTTCAGGTC
3' ss Score
14.19
Exon sequences
Seq C1 exon
CCTCAGAGCGATCTGTGTGTCCATCCCTGGATGAAGCACCTCCCTTCTCGGTGCCCTTCAAACCATACACATGGAGCAGCCTGGGAGGCTCTGAGCTGAGGCACCTCGTGCAAAGCTACCGGCCCTGCCCAACACTGGAGCGAACTTCAGCCTTGAGGCTCTTCTGCGAGCGGGGCTCCGAGCCCACCCTCTATGGTGCAGAGTGTAGCTCTTCCCTTGGACTTTATGGTGATTTTGGCTCCCCAGGCCCAGGGCTGTTTGAGCGGCCTCCAGCAGCACCCGGACTCTATACTGAGACACAGACTGGGCTGCAGCAGGAGAAGGGACCTGGTGGCCTCAAAGTGGAGTCCGACCTCTTGTGCCGCCCTTTGCTCATTAGTGCTGGCTCTTACAAGTGTGTCAAGTGCAGCAAG
Seq A exon
GTAGAGACCCCTTTCTCCCACTCCGGTTATGACTGTTCCCCAGCCCCTTTTCCCTGGCTAACCTGACCCTGCCTGCTCTCTCCCTTTCAG
Seq C2 exon
GTCTTCTCCACACCACATGGCCTCGAGGTACATGTGCGCCGTTCACACAGTGGCACAAGGCCTTTTGCCTGTGACATGTGTGGCAAGACCTTCGGCCACGCAGTCAGCCTGGAGCAGCACAAGGCCGTGCACTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005940:ENSGALT00000009558:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.181 A=NA C2=0.043
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTGGAGTCCGACCTCTTGT
R:
CGAAGGTCTTGCCACACATGT
Band lengths:
168-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]