RnoINT0064786 @ rn6
Intron Retention
Gene
ENSRNOG00000002042 | Gfi1
Description
growth factor independent 1 transcriptional repressor [Source:RGD Symbol;Acc:2680]
Coordinates
chr14:3061489-3063497:+
Coord C1 exon
chr14:3061489-3061674
Coord A exon
chr14:3061675-3063009
Coord C2 exon
chr14:3063010-3063497
Length
1335 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GGCCTCCTGTGCCTCCTCAGCGT
3' ss Score
7.88
Exon sequences
Seq C1 exon
ACGGCGGCGCTGTGAGTGCAGGAGAGTCGAAGATGGAGCCCCGAGAGCGTTTGTCCCCCGAGTCTCAGCTTACCGAGGCTCCAGACAGAGCCTCCGCGTCCCCCAACAGCTGCGAAGGCAGCGTTTGTGACCCGAGCTCCGAGTTCGAGGACTACTGGAGGCCCCCTTCTCCCTCTGTATCTCCAG
Seq A exon
GTAAGGACCCGTGGCGAGGGCTTGTGGCAGAGAGCGGGGGAGAGGGGAGGCACAGCACGGAGGGAAGCCCGCACAAGGCATGCACAGGGTCAGCCTAGGGAGCTGGCTCCTAAGGGAACAGGGTTCAGGGGGAGGCATCCAGATGTGCGGGACATCTTGCCCGGTGTTCTCTACCTCCTTCCAAGACCCTTAGCTCTAGGCTGGCCCTTATTTCGTTTCCCAGGAACTGACAGGTGAGGTCAAATGAGCTGGTCCTCTCTGGCTGACATTTCTTTTATGTCCAGAACTCATTGTTTAGAAAGTGTCAGATCCCAGAATCCAGGACCCAGACCTGAATACCTCAAGCAGGAGACCTGGGCAGTGGGACAGAGCCGGGCACCACACTGGGGAGTGAGGTTGCTGCTGAAAATCTCAGCTCGCTGGCTCTGCCTTCACAAGTTTCATTTTCTCTCCTGTTAAGAAGGCCCAGTCTGGGGAATCAGCATGCTCAGGTTCATTTCCAGGGAGCTATTGGCGAGGGTTGATGGGGGTATCTCAGGTCACAGAAGAAGTAGAAAGGAGATCAATCCAAGTCCTGCCAAGAGCAGGTTATTTCCCGGTCACACTAGCTCATTCACCCTCGCAAGCAGAGGGCTCTTCCTGGCTGCGTGTGACCAGGCTCTCATGGGACAGGTCCGCCCAGAGTCTGTGGCACATTTCCTTGCATCCATTCACTATCCAGTTGTAGCAAAATCCACGCGTGTGAAGGGAGAGGTGTTCTTCTGAAGGTGGTGGCTAGCCCTTAACTGTAACTTTTCATCAGGAATTTCTCAGGGATGGGCACACTTGGCGCCCCTGTCTGCTACCCCTTGCTGACCACACTGAAAAGCTTCATAGCTTTGAGAAATCTTGGTGCCATCCCAGTTTGTTTAGTCTGATACTCCTAGATAGCCTGGGCCCAAAATGTATTGACCTTCTCCGTTCTTCATAGTCTATTGCAAAGAGAAAGGAATTGAGTGGAGGAGTACTCAAAAGGAGTCAGGAGTCAGGACCCTAGGCCTAAGCTCTAGGTGTCTGTCCCAACAGGACTAGCAGGGGCTCGGGGCTGGGAGTGGGTGGGGTCCAGCCAGAGAACCATCATGAATTTACCCACCTCTTCAATCTGTACCATTTAAGTACCACTTTGCTGCCCTCCCACTGGCCCGGGAGCCTCGCGGGCCCACCTGAGTTTTATCCGGGGTGTCCGGGTGTACTTGGTTTTCTAACCAGCTAGGGCGCCTGACAGTAGCGATTATGCACTGCGGGCTCCGCCCAGCAGCCTCGAACCTGACCCAACGGCCTCCTGTGCCTCCTCAG
Seq C2 exon
CGTCGGAGAAGTCGCTGTGTCGCTCTCTGGACGAAGCCCAGCCCTACACGCTGCCTTTCAAGCCCTACGCGTGGAGCGGCCTCGCGGGGTCTGACCTGCGGCACCTGGTGCAGAGCTACCGGCAGTGCAGCGCGCTGGAGCGCAGCGCTGGCCTGAGCCTCTTCTGCGAGCGCGGCGCGGAGTCCGGCCGCCCGGCCGCGCGCTACGGCTCGGAGCAGGCTGCGGGCGGAGCGGGTGCGGGACAGCCTGGGAGCTGCGGAGCAGCCAGCGGCGCCACCAGCGCTGGGGGCCTGGGGCTCTATGGCGACTTCGCGCCTGCGGCGGCCGGGCTGTTCGAGCGGCCGAGCACAGCCGCAGGCCGGCTGTACCAAGATCGCGGCCACGAGCTGCACGCGGACAAGAGTGTGGGAGTCAAGGTGGAGTCCGAGCTGCTGTGCACCCGCCTGCTGCTGGGCGGCGGCTCCTACAAATGCATCAAGTGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002042:ENSRNOT00000002807:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.857 A=NA C2=0.172
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGTTCGAGGACTACTGGAGGC
R:
GAAGTCGCCATAGAGCCCCAG
Band lengths:
356-1691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]