MmuINT0130768 @ mm9
Intron Retention
Gene
ENSMUSG00000070953 | Rabepk
Description
Rab9 effector protein with kelch motifs [Source:MGI Symbol;Acc:MGI:2139530]
Coordinates
chr2:34634186-34636266:-
Coord C1 exon
chr2:34636117-34636266
Coord A exon
chr2:34635050-34636116
Coord C2 exon
chr2:34634186-34635049
Length
1067 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GTTTTGTCCCCCTTACTCAGAAA
3' ss Score
6.9
Exon sequences
Seq C1 exon
GTGACATGAGCTGGCAGAAGCTTGGTCCCACCGGGGCTGTTCCAGTCGGCTGTGCTGCCCATGCCGCCGTTGCTGTGGGACACCATGTATATATGTTTGGAGGTATGACAGCCACTGGAGCACTGAACATGATGTACAAGTATCACACAG
Seq A exon
GTGAGTGAGGGAGTCACTCCTGCTCACTTTTCTTTCTTTTAAAAAAACACTGTGCCCTCTCCTTTCCTTTCAAAAAAAAAAAAATTTTTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCAAAGAAATCCGCCTGTCTCTGCCTCCCAAGTGCTGGAATTAAAGGCATGTGCCACCACTGCCCCGTGTTTTTTTTTTGTTGTTGTTGTTGTTGTTTAAATTTTTTTATTTAAGATTTATTTATATGTATGTGAATACACTGTCACTGTCTGCGAGCATATCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTAGTAGCTGGGAATTGAACTCAGGTCCTCTGGAAGAACAGTCAGTACTTTTAACCACTGAGCCATCTCTCCAGCCCTAACTCCTGGTCTTTAAAACAAACATCTTTTGGTAAGTGATGCAGGCATTTTCTAGTTTGGTGCCTTCATGTCTAAATCGAAAGGAGGGGGTTGGGAAAGTGGCTGAGCTGGTAACAGTGCATGCTGTGCAAACGTGGGGACTAGAGTTAGAATCCCAGCATCCGTATAAAAGCTAGGCATGGTCATGTGCGCCTATAACCCCAGCACTGTGGAGCAGACAGGCCGATTGCCAGGGCGCATTGGCTGGCCAGCCCACCTGAAATTGCAGCTTCTGGCTCAGTGAGAGATCCTTCCTCAAAGGAAAATAGGACAGATATGGACAGAGGAAGACATTTGTGGTCCTACTCTACTCTACCAAAACACACACACACACACACAGTGTACGTACGTATTTAAAAAAACAAAAACAACAAAAACACAAAATCCCACAGAAAAACAGGGTCTGACAAAGGCAGGCATCCTCCTGCCTGTGAGTCCTGAGTGCTGGGATTACAGGCATACACTGTCAGACCCAACCTGTTTTTCCCTTTATTTCCTCTTTGTGGCTTAAGTGATGTAGAACATCACTGAATACCTGTGGAACTATGTCTTAACAGGAGCCTTTGTTTTGTCCCCCTTACTCAG
Seq C2 exon
AAAAGCAGCACTGGACTGTACTTCAGTTTGACACTTCCCTACCCGCTGGACGACTGGACCACTCCATGTGTGTCATCCCATGGCCAGTGATGTCTACCTCTGAGAATAAAGACTCAGATTCTGTCATTCTAACCCTCCAAGATGAGAAAGGGGACGCTGCTGAGAAAGCAGAGACCCAGAGTGGAGGACCACACGAGGAGAGTCCAACTACTGTGTTGCTCTGCTTTGTGTTCGGTGGGATGAACACAGAAGGGGAGGTTTATGACGACTGTCTCGTAACTGTAGTGGACTAATAAAGCCCACATTTGTATTACTTGTGACTTTTTACAAAAGTGAAAACTCTGCCGAGCTACACTGCCAAATACTTTTTGCACAATATATTCTCTCATCCCAGTGCGGTGGTGCACACCAGGCATAGTAGCACACACCTTTAATCCCAGCACTTGGGAGGCAGAGGCCAGCCTGGTCTACGTGGTGAGTTCCAGGACAGCCAGAGCTACATAGTGAAACCCTGTCTTGAAAAACCAGACATAAAAAGCATATCCATCTTGCACTTAATCAACATTTTTAACTGGATAGCCTAGTGCAAATAATTCCATTATAAAGTTTTACCAGCAATAAAATCTGTAGATACCCAAGCTAGGTATTGGAGTAGACAATTACGAGTTAGACACTCTTTAATATGTATTAGCGAATCACTAGAAAAAAGTACAGGCAGGAGGCTAGAAAGATAGCAGTTACAAGAGCAGTGTGGGAGATCCTTATTTGGTTCATAATCACAATGACTGGGTGTTCACAGAATATGTACCTCCCCTAAACCTTGTTCAGGTGTGGGCATATTACCCATCTGGAAAAAAAAAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070953-Rabepk:NM_145522:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.258
Domain overlap (PFAM):
C1:
PF134181=Kelch_4=PD(30.0=29.4),PF0134420=Kelch_1=PU(79.1=66.7)
A:
NA
C2:
PF0134420=Kelch_1=PD(18.6=8.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACATGAGCTGGCAGAAGC
R:
TTGGACTCTCCTCGTGTGGTC
Band lengths:
357-1424
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: