RnoINT0123388 @ rn6
Intron Retention
Gene
ENSRNOG00000018591 | Rabepk
Description
Rab9 effector protein with kelch motifs [Source:RGD Symbol;Acc:1310612]
Coordinates
chr3:13852181-13856047:-
Coord C1 exon
chr3:13855895-13856047
Coord A exon
chr3:13852343-13855894
Coord C2 exon
chr3:13852181-13852342
Length
3552 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TTATTTTCTCTCTGGACTAGAAG
3' ss Score
7.13
Exon sequences
Seq C1 exon
GAACACACCGGTGGGACACGGCCACCAGGGAGGGCCTCTTGCCTCGGTATGAGCATGCCAGCTTCCTTCCATCCTGCTCTCCTCACAGTATCTGGGTGTTTGGAGGTGCAGACCAGTCAGGAAATCGAAACTGTCTACAAGTCATGAATCCCG
Seq A exon
GTGAGTAGACACAGGTTATTTTCTTTTTACCATTGTGGTGGTTTGTGTATCCTTGTCCCAAGGAGTGGCACTACTAGGAGGTGTGGCCTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGTCTTGTTGGAGTGGGTGTGGCCTTTTGGAGGAAGTGTATCATTGTGGGTGTGGTCTCTAAGACCATCCTAGCTAACTAGAAGTCAGGGTTCCACTAGCAGCCTTCAGATGAAGATGTAGAACTCTCAGCTTTTTCTGTACCAAGCCTGCCTGGATGCTGCCATCCTCCCACCTTGATGATAATGGACTGAACCTCTGAACCAGTAAGCCAGCCCCAATTAAATGTTGTCCTCGGTCATGGTGTCTGCTCCCAGCAGTAAGATCCTAACTAAAATAATCATACACTGTGAATGCAGTTATGTCACAGTACATCGAACCGCCCCAGTTAACCTATTTTACTTTGCGGACCTCATAGAAATAGGAATTTATGGATTTTTTTTTTATTTGTATGCCTGCGTGTGCATGAGAGGGAGATACATTCTGTGGTGTCCACATGGAAGCCAGAGGAGGACTCATGGGAATCAGTTCTCTCCTTTTACCACATGGAGCTGAGGGATGGAACTCACCTGGGTAGCTCAGGATTCCTGGTGCTCTCCAGTGGTGGAGTTATAGGAGTGTTTCACGGCTCACGGGGCTGAATTGTCTCTTGTGTCAAGAATTAAAAGTCTTGTAGTGTTTGACAAGTGTCTTCTTAGACAGCCGTTTGATTTGAGTGTTCGAGTGTTTGGAATCCACCGTGCCTTTCCCTCTGGAATGTAAATGCCTTTTTAAAAAACATGCTTTATTTTTTATTTTATGTCTATGAATGTTTTACCCACATGTGTGTCTGTGTCCCAGGTGCATGCAGTGCCCAAAGATGCCAGAGAGAGAATCAGTTGCATTCAGCTGTGAGCCACCACGTGGGTGCTGGGAACCAAAGCCTTTGGAAGAGCAGCCAGTGTTCTTAACTACTGTATCCTCTCTCCCTCTTGCTCTCCCGTCCCTCTCTCCCACCTTCCCCCTCCCTCCCTTCAACCTCCCATCTTCCCTACCCCTCTTGTGTGTCTGGTGGGTTTTTATTTTTGGAGACAGGGTTTCACTGTGTAGCCATAGCTGTCCTGGAGCTCACTCTGTAGACCAGGCTGGCCTCGAACTCACAGAGATCCACTTGCCTCTGCCTCCCAAGTGCTGGGATTAGAAACATACACCATCTCTGCTCTCTTTTCTTTTCTTTTGTTTGTTTGTTTGTTGTTGTTGTCTGTTTGTTTGTTTTTGAGACTGAGTCTCACTATGTAGACCTGGCTGGCCAGACAGGAACTCTTTATGTAGACCAGGCTGGCCTCAAACTCTCAGAGATCTACCTGCCTCTGCTTCTGAGTGCTGGGATTAAAGGCGATCATCACCACCGTGGCTGGAATGTAGATGTTCCGAGGATGAGGTTTTTGTTCATTATTTGTAGAGTCCAGAGCACAATCAGATATGAAGTAGACACTGCCCTGACCTCATGGCCTATCCTGAAGCCATTTTGTCTAGAACCATCATGGAGTATGAACACTGTGCTGGATCTGGTAGTGCAGGCCCGGTATCCCTGTTACTTGGGAGGCTGAGGCAGCAGGACCACAAGTTCAAGGCCATTCTGGACTAGCGTGTGGTGGTTGACAGTTCGGATCAGGCCGGTAGAGTGCTTGCCTGGTGGGAAGGAATCTCTTAGTTTGACTTCCAGAACTTGGGGGAGAAATAGTCCACGAGTCTGTGCTTTGCTGTGCACAAAGTGACCCACAAACTTGAGCCAGGCCTCTCAATGCCTTGGTTTTCTTTCCTGCCACCTTGGGATATCGGTCCCTCCTTTGTGACCTTGTTAAGGGTTTCAGTTAGCAGCTAACTCTCACTCTCTGGTATTGATCCAGACAGAATTTGCAAAGTGGAAATCCGTTCAGGAAGTCCAGGTTTAAAAATGTAGCATGGAGGGTGTTGGGAATGTTGGTAGACATGGGGAAGGGTTCCTTACTCTACCTCCCAGGGCCAGCCTTGAACCAAGACAGGGGAGATCCTCCTGTCTCAGCTTCCTAAATGCCGAGTTCACCAGTCTGTGCTGGACCCTGTCCTTTGGCTCTGGGGGGATGACATTTATTTAAAAAACAGAATCAAACAAAACTCCACAGTGGCGCATGCCTATAATCCTAGCATTCTGAAGGAGGAGGCAGGCAGATCTCTGAGTTTGAGGCCAGCCTGGCCAGGCTGGGCTATGTCGTGAAACCCAGCCTCAGTACCAAGCAACAAGAACAGACCAGTGAAGCCCAGGAAGGCGTCTGTCCGAGAAGCTGATTTTCTTCCCTTTTTGTTTGTTTTGTTTCACTGGCAGAGTCTTGCTGAAGTCAAGGCTCTCAGTCTCCCCGCCTCACTCAAGACTTACAAGTCTGAGCCACCACACCCCCTTCAACTTTTGGTTCCTGGGCTCCAAGCCCTGCCCAGGATCTGCAGCTCGAGAGAGAGTTCCTTTTGCTTTGATGTAGTCCGAGGCCCATTCTGCATGCGCGGTCCTGTTTGGCTCCACACGCATTGCATATGCCTTGTGTAGCATTGTGTGTGTTGAATAAAGAGCCATTCATTACAAAAGGCACAGAGTTTTTCTTTTTTTTAAAAAAAAGGTATTTATTTATTATATATAAGTACACTATAGCTGTCTTCAGACACACAGGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTAGAAGAGCAGTCAGTCCTCTTAACCACTGAGTCATCTCTCCAGCCCCATCTACTTTCATTCAATAACTACATTTTCTAGGAAGTTTGGCACGTGTGGGCTCTAGCATCCAGTGGGAATGGATTTTAGTGGACGTTGAACTCTTGAAAGCACAGGGTTGTCAGCACAGTGGATAAGGGCTCAGACGTGATCCTGACCTCACGTCTAATTCAACATGTGGGTTCTAAGCTTTTGGGAATATGATCTGTCTGGACAACCTCTAATATCATCCTGTTCTTCCTTGGCCTTGGAGAGTGTGAGCTCCTGCCTAAAGCTGTGCTGCACTGTTCTCCTCAGAGACTAGGGTACAAAGGAGATCCTGTCACACCCTACCAAGAGTCAAGGCCCGGGTCTCCAGATCTGGATCAGTGGTGGACTGCAAGCCTAGCAGGCCCTGGGGACAGATTCCCAGCACCTCAGAAAGAAAGTCGTTAGGGCAGAGGCTTCAGCCTAGGTCTTTTTTTTTTTTGGAGCTGAGGACCGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGTTAAATCCCCAACCCCCAGCCTAGGTCTTTTAAGTGCTTATTTTCTCTCTGGACTAG
Seq C2 exon
AAGCCAGGACATGGAGCACACCAGAAGTGACTGGCTGCCCACCATCCCCAAGAACATTCCACACATCATCAGCAGCTATTGGAAACCACCTCTACGTCTTTGGGGGAGGAGAGAGAGGTGCCCAGCCCGTGCAGGATGTGAAGTTGCATGTATTTGACGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018591:ENSRNOT00000025194:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.269 A=NA C2=0.382
Domain overlap (PFAM):
C1:
PF0764610=Kelch_2=PD(20.8=21.2),PF134151=Kelch_3=PU(46.9=44.2)
A:
NA
C2:
PF134151=Kelch_3=PD(51.0=45.5),PF134151=Kelch_3=PU(50.9=49.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]