RnoINT0064791 @ rn6
Intron Retention
Gene
ENSRNOG00000011353 | Gfi1b
Description
growth factor independent 1B transcriptional repressor [Source:RGD Symbol;Acc:1311727]
Coordinates
chr3:7195909-7196759:-
Coord C1 exon
chr3:7196636-7196759
Coord A exon
chr3:7196047-7196635
Coord C2 exon
chr3:7195909-7196046
Length
589 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TGGGTCTTATCTCCTCACAGTGG
3' ss Score
8
Exon sequences
Seq C1 exon
GTGCGGAGCACACTCTGAAAAAAAATGCCGCGGTCCTTTCTAGTGAAGAGTAAGAAGGCGCACACCTACCACCAGCCCCGAGCACAGGGCGATGACCTGGTCTGGCCTCCTGCCGTAATTCCTG
Seq A exon
GTGAGTCTGCGCTTGGGCTATGGCCCACCCCACGCCTACTTGGTACTGTCTTTTTTTTTTTTTAAGATTTATTTATTTATCATATACAAGTACACTGTAGCTGTCTTCAGATACACTAGAAGAGGGCATCGGATTCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCATGACCTCTGGAAGAGCAGTCGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCGCCTTGGCACTGTCTTGATGATGCTATGGCATCTCTCCTGCGTCTCTTAGCTGTCGCTGAGTGAATGAATGAGTAAGTGCATATGTGAATGAATGAAATAAACACTCGTCTCCTCTGGCCTGTGGAGTTCTGGGAGCATCGGATTGGGAGCCGGGAAGGAACTATGGCTCCAACTGAGGTCTGAAGTCAGGGTGCTCTGGGTTCCCACACCTCTCCCTGTCCCAGCAGAGGTGTGAGCAGCAGCAGGCTGGTGTCCCTGGGTGCCCTCTCCCTGGAAATATGGTGGCCCTTGCTCTCCACAGGCATTCCAGAACTGATGGTGGTGACTCTTGGGTCTTATCTCCTCACAG
Seq C2 exon
TGGCAAAAGAACATACCCAGAGTGGCAGCCCTGTTCTCAGCACACTGCTTCCAAGCCAGACCTTGGACTGGAGCGCAGTCAAACAGAAGCAGGAGATGCTGCTGAACCAGAGCCTTCCCAAGATGGCCTCAGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011353:ENSRNOT00000015236:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.735 A=NA C2=0.511
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF153561=SPR1=PU(29.2=44.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAAATGCCGCGGTCCTTTCT
R:
CCATCTTGGGAAGGCTCTGGT
Band lengths:
230-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]