RnoINT0064004 @ rn6
Intron Retention
Gene
ENSRNOG00000057044 | Garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:RGD Symbol;Acc:1564019]
Coordinates
chr3:12058152-12058661:-
Coord C1 exon
chr3:12058563-12058661
Coord A exon
chr3:12058269-12058562
Coord C2 exon
chr3:12058152-12058268
Length
294 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTG
5' ss Score
4.05
3' ss Seq
TGCCTTCTCACTGTCACCAGGGA
3' ss Score
8.83
Exon sequences
Seq C1 exon
ATGACCTCCCATCCGTGCCCGTGTTTGACAGAACTCTACCCGTGAAGCAGATCCACGTGCTTGAGACTCTGGACCTTCTGGTTCTCAGAGCAGACAAAG
Seq A exon
GTGCTGCCCCTCAGATGGCTGCTCTGAGAAGAGCAAGATGGCGGGTGGCCCACTGCAGCCAACCACAGGGTCGCTGGGTCTGGGGTCTTGTCACTGTGTCCTCCCCGCTGTCAGTGCTGTGGTCCTTTGGTGGCCCACTTGTCAGGATAGTGGAGGGAAGGGGAGTTTCATTCTCCCATGATTATGTGGAGCAAGCATGCTATGGGGTAGCTACAGTGGCTTGCATCCCGGAAAACTTTCCAACCCTGGTTTGTGTGTCTGACTGGGAGTACTCTGCCTTCTCACTGTCACCAG
Seq C2 exon
GGAAAGATGCCCGCCTCTTTGTCTTTCGGCTGAGTGCGGTGCAGAAAGGCCTTGATGGCAGGCAGACCGGAAGGAGCAGATCTGACTGCCGAGAAAACAAGTTGGAGAAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057044:ENSRNOT00000082696:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.275
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(10.8=100)
A:
NA
C2:
PF0078017=CNH=FE(12.7=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:
ATGACCTCCCATCCGTGCC
R:
GGTTTTCTCCAACTTGTTTTCTCGG
Band lengths:
212-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]