RnoINT0064013 @ rn6
Intron Retention
Gene
ENSRNOG00000057044 | Garnl3
Description
GTPase activating Rap/RanGAP domain-like 3 [Source:RGD Symbol;Acc:1564019]
Coordinates
chr3:12040851-12042028:-
Coord C1 exon
chr3:12041813-12042028
Coord A exon
chr3:12040978-12041812
Coord C2 exon
chr3:12040851-12040977
Length
835 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATC
5' ss Score
5.91
3' ss Seq
GATTTTCCTCTGTACTGCAGGCC
3' ss Score
8.2
Exon sequences
Seq C1 exon
GTGAAATTCAGTCTAAAAATCTGTACAAGATTCCACTTAGAAACCTTGTGGGCAGAAGCATCGAGCGACCTCTGAAATCGCCCTTAGTCTCCAAGGTCATCACCCCGCCCACCTCCATCGGCCTTGGAGTCGCCGCCATTCCTGTCACACATTCCTTGTCCCTCTCCCGCATGGAAATTAAAGAGATAGCAAGCAGGACCCGCAGGGAGCTGCTAG
Seq A exon
GTAATCACCTCCGCCAGGCTGTGTCCCAGCTTATAACTAGACCAGAGGTCAAAACCAGAGGTTAATGGGGACCACGGGCCGGTGAGGTGGCTCAGAGCTTCAAATACTCCTTCAAGCTTTACATGTGAGTTGGAGCCCCAGGACATACATGACTAAAGAACAGAGCTGACTCAAGCTGTCCTCTCATCCCCAAATAAATAACATGATAAAACAATTTAAACAAACTCCCTCTCAGAAGAGATTTATTAATCCATCAATCATAATCCACACCCGACCATTTCCTCCAGGGATGCTGCTGGCCTCTCTTCCTGCATCAGCTGACCAAGCCATGTTCCATGGAGGGGAGGAAGGGGCAGGCAGTTCCTAGGATCACTACAGGACTTTAGGGACTTGGCTGCTTGTATTAGGCTTCTCCAGGACTTGTGTATTGCAGTGTATGTATACTTTACGATCAGAGAAAGAAAACTTCACCAACAAGAAAACTACTCGAAAAACAATCTGTCATCTTTGCTACTGTCTTGGGTCTCACAATGTACCAATGAGAACAGAAGGTGGTGTGCACCTTTAATCCCAGCAGTTCAAAGGCTGACACAGGTGGATCTCTGAGTTTGAGGCCAACCTGGTCTACAAAGCAAATCTAGGACTGCCAGAGCTACAAAGAGAAAGCCTGTCTCAAAAAACTAAAAAATAAAATAAAGTGAAGTAGGCAGGGAAAATGGAGGGAGAAGGGATAGATGTGGTCAAAACATATCATATGCTTGTGTGAAATTTGCAAAGAACTTTCTGCCCCCTATGGTAATGGCCTGCTGGCCTGTGATTTTCCTCTGTACTGCAG
Seq C2 exon
GCCTCTCTGATGATGGTGGGCCCAAGTCAGAAGGAGCACCAAGGGCTAAATCAAAAACCCGGAAGCGGTTGGAAGAAAGCCAAGGAAGCCCCAAGCCAGAGACTATGAGGTCAGCTAGCAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000057044:ENSRNOT00000082696:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.356 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGATTCCACTTAGAAACCTTGTG
R:
TGTCACTGCTAGCTGACCTCA
Band lengths:
318-1153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]