MmuINT0130766 @ mm10
Intron Retention
Gene
ENSMUSG00000070953 | Rabepk
Description
Rab9 effector protein with kelch motifs [Source:MGI Symbol;Acc:MGI:2139530]
Coordinates
chr2:34784546-34785728:-
Coord C1 exon
chr2:34785567-34785728
Coord A exon
chr2:34784696-34785566
Coord C2 exon
chr2:34784546-34784695
Length
871 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGG
5' ss Score
4.99
3' ss Seq
TAATGCCTTTACCTTTGTAGACA
3' ss Score
7.24
Exon sequences
Seq C1 exon
AAGACAGGACGTGGAGCACACCAGAAGTGACTGGCTCCCCTCCATCCCCAAGAACATTCCACACATCGTCCGCAGCTATCGGAAACCAACTATACGTCTTTGGGGGAGGAGAGAGAGGTGCCCAGCCTGTGGAGGACGTGAAGTTGCATGTATTTGACGCAA
Seq A exon
GTATGGGCTGGGGACATAGGGATCTTGGGGCTGCTTTCCTGGCCAGGGCCACCTCAGCTTCACTTATCTCTCAAACAGGAGACAGGGACTTGAGAAAAGATTTTACACTAAGTAGAGTCCTTGTCTAGCATGCACCAAACCCTGTACACATTTAGTCCCTAGCACCACACAGACCAAGCGCAATGGCAGATGAGTGTCTATAATCCCAGCAGTCGAGAGACTAGGCCTAGCCTACGAGACATGAAACCTGCCTCAAAAAAAGAGTCAAGCTTGGTGTATTGGCACATGTCTTTAATCCCAGCCCTATGCGGTGGAAGCAGGCGGATCTCTTCGAATTTGAGGTCAGCCTGGTCTTCATAGTTCTAGGCTAGCCACAGCTATATAATGAGACCCTGTCTCAAAAGACAATGACAAAAAGGTGGTGACTCTCGGTTGGGTGTGGCTCAAAGGTAAAGCATGTACTCAGTGTGTGCAGTGCAGTGCAGTGTATGCAGTGCCCTGGGTTCGATTTCCTGTACCTCTCAAAAGCAAACAACAACAAAAGAAAAAAAAAAGAAGAGCTCTGAAGGTTTCTCACAGAAGAAGCATGCGCACTTATTTTAACTTTGAGGTAGTTCTTATTCGAAGCTTTTCTCAATCCAAAGCAAGAGATGGCTTCCTACTAGCCAGACTGTAAGCCAGCATGCGGGGTTATTGGCTTTGCAGCTTACAGCCCTGCGAGTATCCAAGTAGAGGTTACGTAGTGGGATTGAGGTCTCCTGCTGGTAAGCTGGGGAGAAGGACTCTGAGGTGACTTCCTTCTTGGAGCGCCCTGCCCTGGGAGGTGCTTGCAGAGACAGGTTACCTAGTGTTAATGCCTTTACCTTTGTAG
Seq C2 exon
ACACTCTGACATGGTCTCAACCGGAGACACATGGAAGTCCTCCGTCTCCTCGGCATGGCCATGTGATGGTGGCAGCGGGCACAAAACTCTTCATCCACGGAGGATTGGCAGGGGACAAGTTCTTTGATGATCTCCATTGCATTGATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070953:ENSMUST00000145903:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.436 A=NA C2=0.301
Domain overlap (PFAM):
C1:
PF0764610=Kelch_2=PD(20.8=20.0),PF134181=Kelch_4=PU(70.4=69.1)
A:
NA
C2:
PF134181=Kelch_4=PD(27.8=29.4),PF134181=Kelch_4=PU(68.0=66.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGACAGGACGTGGAGCACA
R:
ATATCAATGCAATGGAGATCATCAAA
Band lengths:
310-1181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types