RnoALTA0016387-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000011353 | Gfi1b
Description
growth factor independent 1B transcriptional repressor [Source:RGD Symbol;Acc:1311727]
Coordinates
chr3:7192642-7194100:-
Coord C1 exon
chr3:7193963-7194100
Coord A exon
chr3:7192808-7192906
Coord C2 exon
chr3:7192642-7192807
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CGGAGTGTCCTCTTTCTCAGGGT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GTGTTCTCCACCCCTCATGGGCTAGAAGTGCATGTCCGCCGCTCTCACAGCGGAACCCGGCCCTTTGCCTGTGACATCTGTGGCAAAACCTTTGGCCACGCTGTGAGTTTGGAGCAGCACACGCACGTGCATTCCCAG
Seq A exon
GGTGTCCCAGCCAGGTCCAGTCCCTCGCCCAGCTTGGCTGTCCCGGGCCTCGAGGCCCCACCTGCACCTGACCCCCCAAGGCCTCGTTTCCTCCGGCAG
Seq C2 exon
GAGCGTAGCTTCGAGTGCCGGATGTGTGGCAAAGCCTTCAAGCGCTCATCCACTCTGTCCACCCACCTGCTCATCCATTCGGACACTCGGCCCTACCCCTGCCAGTTCTGTGGGAAACGCTTCCACCAGAAGTCGGACATGAAGAAACACACCTACATCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011353-15-12,15-11-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=58.7)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=41.1),PF134651=zf-H2C2_2=PU(38.5=17.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGAGTTTGGAGCAGCACA
R:
TCATGTCCGACTTCTGGTGGA
Band lengths:
180-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]