RnoINT0064788 @ rn6
Intron Retention
Gene
ENSRNOG00000002042 | Gfi1
Description
growth factor independent 1 transcriptional repressor [Source:RGD Symbol;Acc:2680]
Coordinates
chr14:3063619-3064783:+
Coord C1 exon
chr14:3063619-3063756
Coord A exon
chr14:3063757-3064617
Coord C2 exon
chr14:3064618-3064783
Length
861 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CCCTCCCTTCCTTTCTGCAGGAA
3' ss Score
12.37
Exon sequences
Seq C1 exon
GTGTTTTCCACACCGCATGGGCTGGAGGTGCACGTGCGCCGGTCCCACAGCGGCACGAGACCCTTTGCGTGCGAGATGTGCGGCAAGACTTTCGGGCACGCGGTGAGCCTGGAGCAACACAAGGCCGTACACTCGCAG
Seq A exon
GTAAGCTTGGCGCTTGCGTCCTGGCGCTGCACTGGGGATATTTCAGTTCGTCCTCCGCTTGGGCACCAGCCACTTTCCTACTGTCCCAGGACTTTCCACGGCCTTTCGGTGCCCCTTCTGCTTGCTCCTATTTAGGTGTACAGAGAATCCTGGGTGATAGAGGTCCAGAGTGTAGTGCAATCTGAGATTGCAGCGTCGCACCGCTGTGAGCCTCCAGCGGTGGAATTCTGGTGTTTTGTCGCAGTTTGCTGTAATGCACTGGCTTGACTGTTTATGTTCCCTTCATCTTTCCTGACTGGCAAGGGAGGATCTCAGTTCACGCACAGCGTCCAGTAGTGAATGCTAGCCATTTACTCATCCATTTAGAACTTGTTTAAGTCCGAGGCTTTGGGCACCTGAGAATCACAGCACACCAGGTCCTGTATGATGACTAAAGAGAGGGAGATAAGGAAAATACTACACAAGTGTCTGTGACAGCAGCCCATCTGGTCCCAACCCCACAGTGACGGGGAGGAGGGGCAATCTTAAGTGGCTGATGTCCTGCTGAAGAGGGTGTCAAAAATTCAGGGCGGAGCTACACTTTTGCCCTGGGGTGTGGAGGGTTGTGGCTGTGAAGTGTTTTGATAGGAAACATGTTAATCAGTGGGTGTTGAATGATGGGGTGGAGGGAGAAGAGGGTTTCTGACTTTGGGAGATCAGTAGGTGTTGGGGAGAGAGGGGGGGGAGGGAAGAAGGGAGGGAGGGAGGGAGGGAGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAACACCAGCCACACGAAGGCTGCTGGAAGAGGCACCCATTTCTCCCTCCCTTCCTTTCTGCAG
Seq C2 exon
GAACGCAGCTTTGACTGTAAGATCTGTGGCAAGAGCTTCAAGAGGTCATCCACACTGTCCACACATCTACTCATTCACTCGGATACCCGGCCCTACCCCTGTCAGTACTGTGGCAAGAGGTTCCACCAGAAGTCAGACATGAAGAAACACACTTTCATCCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002042:ENSRNOT00000002807:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTCCACACCGCATGGG
R:
TGTGTGGATGAAAGTGTGTTTCT
Band lengths:
302-1163
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]