RnoINT0063961 @ rn6
Intron Retention
Gene
ENSRNOG00000017925 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:RGD Symbol;Acc:1307479]
Coordinates
chr3:13776272-13777751:-
Coord C1 exon
chr3:13777632-13777751
Coord A exon
chr3:13776350-13777631
Coord C2 exon
chr3:13776272-13776349
Length
1282 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GGTGTGCCTTGTTGTTGTAGGCG
3' ss Score
7.84
Exon sequences
Seq C1 exon
GCATAAGCGCTACATCGGAGGATATTCCCAATAAGATCGAAGACCTGCGATCTGAGTGCAGCTCTGATTTTGGGGGTAAAGATTCTGTAACTAGTCCAGATGTGGATGACATAGCCCATG
Seq A exon
GTAAGTTGTGGGGGTGAGAATGACCTTTTAAGGTAATCATATTGTATCAGCACTCAGGAGGTGGAGGCAGGGGATTATCTGTGAGTTTAAGATTTGCCTGGCTTACATAGTGAGTTCCAAGTCAGCCAAGTCTGTAGAGTGAGCCTTTATCCAAAAAAAAAAAAAAAAAACAAAAAAGAAAGAAAAAAGAGAAGAAAAAACCCAAAAGCAAAATCCTACAAAACAAAGCAGGCTTGGGAAACGGCTCCGTCTGCTCTTCCAGAGGACCTAGGTTAGATCCCCCACACCCACCTGCAGCTCACAACTGTCTCCATCTTCAGTTCCAAGAGCACCCAGGGGCCTCCTCTGGCCTCCGTTGGCACTGCATGCATATGGTATACAGATACGCATGCAGGCAAAACACTCATACACACAACATAAAAGTAAGTAATATAAAAAATTCACAAAGCAAGAATAACAGATCATATACTGCTGGGATTTGATTCATTAGTATAACTCTTCAGGCATAACTTGTCAGTGTGTACGTGGGGACTTAAATGTTCATATTCTAAATTTGGTTCAGTTAGAACTACTTCTAGAAATCTGTCATAATGAAATCCATGAATGGAGAAAGTTTTGGTCTCTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGTGCTCTCCCACTGAGCTAAATCCCCAACCCCAAAGTTTTGGTATCTTTATACTTACCTATTTTAATATTTCTAATTGTGTTAAGACGTGCTTAGGGGTATCTTTTTGGGAGTGGGGGTTCTGTAGTCTAAGATTTAGAAATTAGAGTTAATTCGTGGCATTATATATTCATTTCATTCATGAATTCGTTTTAAAATTAGGACATTTGCTGAAAGCAATATTAGCCTTTCAAACTCCACAGTTCTCTGCCTCTTCTTTAAACAGTATTGCTTGTTTTTATGGTGGGAGAAGTGAGTCTTAGAGAGGCTGGCCATTACTTAAAACACAGGTGAGCCTCATGGTGGCCTTCTTCACACTAACCATAATAGTGTTGTCCATTAGTAATAAGCATGTGGATGCTGTTCCCTCTAAACGGGGTGAAAATCCCCACATTCAGATTAAATGCGGGGTAATCAGAATTGATTCTTATTGGTGTCATTTATTGCTGGTATGCTTCTCAAGTTCTAATTAAGAGAGGAAAACTGTGGAAGAGTCTTAGAGCCTTCCTGAGTATCTGGACTGCTGTCTGCACGTGGCTTGATCTCATGGTGTGCCTTGTTGTTGTAG
Seq C2 exon
GCGCCCACCAGCTGACCTCTCCTCCCTCTCAGTCAGAGTCTCTGCTTGCCATGTTTGACCCACTGTCTTCACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017925:ENSRNOT00000066961:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=0.926
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:
GCATAAGCGCTACATCGGAGG
R:
GACAGTGGGTCAAACATGGCA
Band lengths:
187-1469
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]