RnoINT0064787 @ rn6
Intron Retention
Gene
ENSRNOG00000002042 | Gfi1
Description
growth factor independent 1 transcriptional repressor [Source:RGD Symbol;Acc:2680]
Coordinates
chr14:3063010-3063756:+
Coord C1 exon
chr14:3063010-3063497
Coord A exon
chr14:3063498-3063618
Coord C2 exon
chr14:3063619-3063756
Length
121 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTCCCCCCACTCGCCCTCAGGTG
3' ss Score
10.15
Exon sequences
Seq C1 exon
CGTCGGAGAAGTCGCTGTGTCGCTCTCTGGACGAAGCCCAGCCCTACACGCTGCCTTTCAAGCCCTACGCGTGGAGCGGCCTCGCGGGGTCTGACCTGCGGCACCTGGTGCAGAGCTACCGGCAGTGCAGCGCGCTGGAGCGCAGCGCTGGCCTGAGCCTCTTCTGCGAGCGCGGCGCGGAGTCCGGCCGCCCGGCCGCGCGCTACGGCTCGGAGCAGGCTGCGGGCGGAGCGGGTGCGGGACAGCCTGGGAGCTGCGGAGCAGCCAGCGGCGCCACCAGCGCTGGGGGCCTGGGGCTCTATGGCGACTTCGCGCCTGCGGCGGCCGGGCTGTTCGAGCGGCCGAGCACAGCCGCAGGCCGGCTGTACCAAGATCGCGGCCACGAGCTGCACGCGGACAAGAGTGTGGGAGTCAAGGTGGAGTCCGAGCTGCTGTGCACCCGCCTGCTGCTGGGCGGCGGCTCCTACAAATGCATCAAGTGCAGCAAG
Seq A exon
GTGAGGCTCCCGCGCACCCGGCCTCATCAGCCCTGTGTCCCCAGCCCGTGACCCTCCAGCGTGCGCACCCCGCCACCCGCCTCAGCGACCTTCTCCCTGCCCTCCCCCCACTCGCCCTCAG
Seq C2 exon
GTGTTTTCCACACCGCATGGGCTGGAGGTGCACGTGCGCCGGTCCCACAGCGGCACGAGACCCTTTGCGTGCGAGATGTGCGGCAAGACTTTCGGGCACGCGGTGAGCCTGGAGCAACACAAGGCCGTACACTCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002042:ENSRNOT00000002807:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.172 A=NA C2=0.065
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
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCGGCTGTACCAAGATC
R:
CTTGTGTTGCTCCAGGCTCAC
Band lengths:
256-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]