RnoINT0064007 @ rn6
Intron Retention
Gene
ENSRNOG00000057044 | Garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:RGD Symbol;Acc:1564019]
Coordinates
chr3:12053671-12054808:-
Coord C1 exon
chr3:12054650-12054808
Coord A exon
chr3:12053738-12054649
Coord C2 exon
chr3:12053671-12053737
Length
912 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCTGCCCGCTGTCATTGCAGGTC
3' ss Score
8.78
Exon sequences
Seq C1 exon
GAAATCTGTCTGTGTGACTCCCCGGCGGTGATGGCCTTAGTGGATGGGCCAACAGAGGAGAGCGACAACCTCATCTGTGTGGCGTATCGCCATCAGTTCGATGTGGTAAATGAGAGCACAGGGGAAGCCTTTCGGCTGCACCACGTAGAGGCCAACAAG
Seq A exon
GTGAGCCAACAGTGGTGGGAACAGGTGGCAATAAAAGACAGTGGGGGCTTGTGTCTTCTAATTTTAGATGTCACTGTGATGTGCTTCAAAATCCTCTAGTCAGGTGAGGGGGCCCGGAGAATTGTGAGATCAAAGTTAACCTGGGCTACATAGTATTTTGAGGCCAGCCTGGGCTACATAAGGCCCTGCCTCAAAACAATAATAATAAAAGTACATGCTGTGCATCTGTAGCACATGCTGTGCTCCTGAGGCTGGGTCACATGGAGCTGCCTTCAAAGGGCGGGGTTTCTGGGCTCCAGAAGGCCAAGGGATGTCTGCAGCCCAGGCCGAGCACCCTGTGTCAAATCTGGACAGTGACAGCCCAGGGCCAAGCATGTCCCAGACCCACTCCACTGTTTTATGCTGTCTTTATGGAGACAGAAATGGAGACGTACTGGGTGTTAGCACAGAGAGCCCTCACTGAAGGCCCAGGCGACATGTCAGGAAAAGATTGGGTCTGTGGGTCCCACAGCTAAGGGGCTCGCTCACCTCACGTCCTGTGAGACAGGCTCAGTGCTGTCTGCTGGAACATTGGTGTGAGCATGGAGTGAGTGGCACATTCGGCAGCCCTGTGACCCTGAGCATTCTGGGTAAATGGCATTCAGGAACACACAAGCAGGATGCTGGACTCACAGCTTCTGGAGGGGCAGGGAAATGCGGTGAGGACATTCCACCCAGAGAGGAGAGAGAGCAAAGAGGTTGCTCTTACACCTGCGGCTCCTTGTGACCCTAGGCCCAGGTGTAGGTATTGGGGGGGGGGGGGGCAAACATGGCTTTGTCCACCCTGAAGGCCAATGCTAGATGCCCAGAGCTTAAGGAAGTTCTTCAGGGACCTGATGCCACACTCCATGGCGCTGCCCGCTGTCATTGCAG
Seq C2 exon
GTCAATTTCGTTGCAGCTGTTGATGTGTATGAGGACGGAGAAGCCGGCCTGCTCCTCTGCTACAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057044:ENSRNOT00000082696:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(17.0=100)
A:
NA
C2:
PF0078017=CNH=FE(7.2=100)
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:
ATCTGTCTGTGTGACTCCCCG
R:
AGTTGTAGCAGAGGAGCAGGC
Band lengths:
223-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]