RnoINT0123391 @ rn6
Intron Retention
Gene
ENSRNOG00000018591 | Rabepk
Description
Rab9 effector protein with kelch motifs [Source:RGD Symbol;Acc:1310612]
Coordinates
chr3:13845361-13847181:-
Coord C1 exon
chr3:13847032-13847181
Coord A exon
chr3:13845677-13847031
Coord C2 exon
chr3:13845361-13845676
Length
1355 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTTCTGTCCCCCTTACTCAGAAA
3' ss Score
6.96
Exon sequences
Seq C1 exon
GTGACATGAGCTGGCAGAAGCTTGGTCCCACCGGTACTGCCCCAGTAGGCTGTGCTGCCCATGCCGCCGTGGCTGTGGGACACCATGTGTATGTGTTTGGAGGAATGACTGCCACTGGAGCACTGAACACAATGTACAAGTACCACACAG
Seq A exon
GTGAGTGACAGTCCCTTCTGGTTGTTTTTTTTTTTTTTTAAACATTGTCCTTTTCTTTCCTTCCTTTTTTATCTTATTTTTAAGATTTATTTAATTATTTTATATATGTGGGTACACTGTCACTGTCTTCAGACACCAGAAGAGGACATCAGATACCATTACAGATGGGTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAGGAGCGGTTAGTGCTCTTAACCACTGAACCATCTCTCCAGTCCCAACTCCTGGTCTTTAAAACAAACATCCTTTGGAAAGTGACGTGGATGTAGTTTGGTGCCTTCATGTCTAAATCCAAAGGAAGGGCTGGGGAAATGGCTCAGGGGTAACGGTGCATGCTGTGCAAACAGGAGGCCCTGAGTTGGAATCCCCAGCATCCATATAAAAGCTGGGCATGGCCTCGTGGTGTGTGCCTATAACCCCAGCACTGGGGAGCACAGACAGGCAGATTGCCAGCACTCATTGGCTGCCAGCCCACCTGAAACAGCAGCTTCTGGTTCAGTGCGGGACCCTATCTCAAAGGAAAGTAGGACAGATATCGGACAGAGGAAGACAGCTGAGGTCCTCCTCACCCTACTCTCCCAAGATACACACACACACACACACACACACACACACACACACACCTACATGTACACGTACTCATACACGCACACACTAAATCCAAAAGAGTGAAAACTAAACTTAAAGATGGCATAATTAATACACAAGAAGCAAGGTGTGATGGTTCATCTTTGAAATCCCAGTAATTGGGAGGCTGAGGCAGGGGGATTAAGTTCCAGGATAGCTTGGCCTACAGAATAAGCTCCTTCCTGTCTTAGACTGGAGAGTTGTCTTCAGGGCAGTCACTTGCTGCTCTTGAGCAGAGGATTGGAGTCCAGTTGCCATCACCCACATAGCAGCTAACAACTGCCTGAAACGCCAGTTCTTGGGGGTCCAAAGACGACTTCTGGCCTCTCTGGGCACCAGGCATGCAAGAGGTATGGAGACATGCAGGCCAAACCCCATGTACATTAAATAAATAAATGTTTACACACACACACACACATACACACACACACACACACACACACACACACACACACACACTTTAAAAAGACAAAACAAAACCCCACAGGGTCACTCTGTGTAGCCCAGCTGGTCTGATAAAGGCAGCCATCCTCCTGCCTGTGCATCCTGAGTGCTGGGATTACAGGTATGCACTCAGGCCCAGCCTGTTTTGTTCATTTCCTCTTTGTGGCTTAGCTGATGCAGAGCATCACTAAGTATCTGTGGAACTGTCTTAACAGGAGCCTCTGTTCTGTCCCCCTTACTCAG
Seq C2 exon
AAAAGCAGCACTGGACCATACTTCAGTTTGACACTTCCCTCCCCCCTGGACGCCTGGACCACTCCATGTGTGTCATCCCATGGCCAGTGATGTCTGCCTCTGACACTGAAGACTCAGGTTCTGTCATTCTCAGCCTCCAAGATGAGAAAGGGGACGCTGCTGAGAAACCAGAGACCCGGAGTGGAGGGTCCCGTGAGGAGAGTCCGACCACACTGCTGCTCTGTTTTGTGTTCGGTGGGATGAATACAGAAGGGGAGATCTATGATGATTGTCTCGTGACCGTAGTGGACTAATAAAACCCACATTTTTATCACTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018591:ENSRNOT00000025194:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.247
Domain overlap (PFAM):
C1:
PF0134420=Kelch_1=PU(77.3=66.7)
A:
NA
C2:
PF0134420=Kelch_1=PD(20.5=9.2)
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:
GAGGAATGACTGCCACTGGAG
R:
AGTCCACTACGGTCACGAGAC
Band lengths:
342-1697
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]