RnoINT0123389 @ rn6
Intron Retention
Gene
ENSRNOG00000018591 | Rabepk
Description
Rab9 effector protein with kelch motifs [Source:RGD Symbol;Acc:1310612]
Coordinates
chr3:13850746-13852342:-
Coord C1 exon
chr3:13852181-13852342
Coord A exon
chr3:13850896-13852180
Coord C2 exon
chr3:13850746-13850895
Length
1285 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGG
5' ss Score
4.99
3' ss Seq
TTATGCATTTGCCTTTGTAGACA
3' ss Score
9.02
Exon sequences
Seq C1 exon
AAGCCAGGACATGGAGCACACCAGAAGTGACTGGCTGCCCACCATCCCCAAGAACATTCCACACATCATCAGCAGCTATTGGAAACCACCTCTACGTCTTTGGGGGAGGAGAGAGAGGTGCCCAGCCCGTGCAGGATGTGAAGTTGCATGTATTTGACGCAA
Seq A exon
GTATGGGCTGGGACTTAGGGATCTTGGGGCTATTTACCTGAGCAGGGCCACCTGAGCCTGGGTTATCTCTCAAACAGGAAAGAGGGTCTTGAGAAAAGATTCTGTGCTGAGTTCTTGCCTAGCAAGTAATCCCAGCAGTTGAGAGATCAGGCCTAGCGTAAGATACATGAAACCTGGAGGGGGGGGGGGAAGCGCCAAGCTGGGTGTAAAAAATAAAAAGTCACTTGTCCCAACCAGTTCCTGCACGTGCTGCTTTGTGCTTTCTCTCCCAGGCTCCCTCTGACCCTGGCGGTCCAGGAGCCGTTCACTTGGTTTCCTTGGCTAGCTGTTACCATGCCAGGCATACACATCCCAATTCTGTGGCAGCCGCATGCATCCCACCACCACACACTCTCTTGAACTCAATTAAGTCGCCACGAAAGAACACACCACACGATAACCTCTGATCCAATTGATAATATATAATTTGCTCATCTAGGCAGCACAAAATCCTGTACACACCCGTCCCTTAAAAATAGTGATAATAACCTCTATCTATGCACAGAGAAGAATCTTAACATCTGCCGCCATGCTTTCCTAGCTCCTCCTCCTCCTCCTCCTCAAGCCCCCTCCTCTCCTGCTTCTAAAACGTTGTTCCCGCCCATCCTTCCTTCTCCTCCAATGACAGGCCTCGTTTATTTTGTCTGCCTTCACCTGCATAATAATGCCATCAACCTACATACCAGTACATGTCTTTAATCTCAGCACTATGAGGCAGAAGCAGGTAGATCTCTTTGAATTTGAGGTCAGCCTGGTCTACATAGTTCTAGGCTTGCCCAGGCTATATAATGAGATCCTGTCTCAAAAAACAGTGACAAAAAGATGGGGACTCTAGGTTGGATGTGGCACATGTACTCAGTATTGTATAATACCCTGGGTTTGATTTCCTGTACCTGTCAAAAACAAACAACAACAAAAGAAAAAGAAAAACCAACTCTGAAGGCTTTCACAGCAGAGGCTCACACATTTCTTTTCACTTTGAGGCAGTTCTTGTTTGAAGCTTAAGGGAATATGTTTCTCAGTCCAAAGCAAGAAATGGCTTCCTAATAGCCAGACTGTGAGCCAGCATGCTGGGTTATTGGCTTTTGCAGTCTGCTGCTCTGGAAGTAGAGGTTACATAGTGGGATTGGGGTCTGCTTGGCTGGTAAACTGGGGAGGAGGACTCCGAGGTGGCTTCTTGGAGCGCCCATGCCCTGGCAGGTGCTGAAGAGGCAGGCCACCTAGCATTATGCATTTGCCTTTGTAG
Seq C2 exon
ACACTCTGACGTGGGCTCAGCCAGAGACGCATGGAAGTCCTCCATCTCCCCGGCACGGCCACGCGATGGTGGCAGCAGGGACAAAACTCTTCATCCATGGAGGACTGGCAGGGGACAGGTTCTTTGATGATCTCCACTGCATTGATATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018591:ENSRNOT00000025194:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.382 A=NA C2=0.346
Domain overlap (PFAM):
C1:
PF134151=Kelch_3=PD(51.0=45.5),PF134151=Kelch_3=PU(50.9=49.1)
A:
NA
C2:
PF134151=Kelch_3=PD(47.2=49.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACATGGAGCACACCAGAA
R:
TCAATGCAGTGGAGATCATCA
Band lengths:
302-1587
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]