HsaALTD0001096-1/2 @ hg38
Alternative 5'ss
Gene
ENSG00000196642 | RABL6
Description
RAB, member RAS oncogene family-like 6 [Source:HGNC Symbol;Acc:HGNC:24703]
Coordinates
chr9:136837585-136837980:+
Coord C1 exon
chr9:136837585-136837615
Coord A exon
NA
Coord C2 exon
chr9:136837862-136837980
Length
0 bp
Sequences
Splice sites
5' ss Seq
TAGGCTGTT
5' ss Score
-9.66
3' ss Seq
CCCGGCATCACTGTTCACAGAGC
3' ss Score
4.96
Exon sequences
Seq C1 exon
CCCCCGCCCCACGGCGCAGCATCATCTCTAG
Seq A exon
NA
Seq C2 exon
AGCCAGTCCCGGCCGCAGAGGGCCCAGCAACGGTCCAGAGTGTGGAGGACTTTGTTCCTGACGACCGCCTGGACCGCAGCTTCCTGGAAGACACAACCCCCGCCAGGGACGAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196642-17-32,18-32-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.950 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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 1 annotated functions for this event
PMID: 19433581
All four RBEL1 isoforms (A, B, C, and D) have identical N termini harboring the Rab-like GTPase domains but contain variable C termini. Although all isoforms can be detected in both cytoplasm and nucleus, RBEL1A is predominantly cytoplasmic, whereas RBEL1B is mostly nuclear. RBEL1C and -D, by contrast, are evenly distributed between the cytoplasm and nucleus. Furthermore, all four RBEL1 proteins are also capable of associating with cellular membrane. The RBEL1 proteins also exhibit a unique nucleotide-binding potential and, whereas the larger A and B isoforms are mainly GTP-bound, the smaller C and D variants bind to both GTP and GDP. Furthermore, a regulatory region at amino acid position 236-302 immediately adjacent to the GTP-binding domain is important for GTP-binding potential of RBEL1A, because deletion of this region converts RBEL1A from predominantly GTP-bound to GDP-bound. RBEL1 knockdown via RNA interference results in marked cell growth suppression, which is associated with morphological and biochemical features of apoptosis as well as inhibition of extracellular signal-regulated kinase phosphorylation. Notes: C and D: internal APA, the difference is HsaINT0025589 (retained in D). B: ALTD (ex 9, HsaALTD0001096) top ALTA (ex 15, not in VastDB) skipping exons 10 (not in VastDB), 11 (HsaEX1030457), 12 (HsaEX7005708), 13 (HsaEX6064086), 14 (HsaEX6064085).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development