Special

GgaEX6014719 @ galGal3

Exon Skipping

Gene
Description
NA
Coordinates
chr17:965399-968100:-
Coord C1 exon
chr17:967929-968100
Coord A exon
chr17:966096-966145
Coord C2 exon
chr17:965399-965476
Length
50 bp
Sequences
Splice sites
3' ss Seq
CTGTTTGTTTGTTTGAACAGATA
3' ss Score
9.09
5' ss Seq
GAGGTATTA
5' ss Score
6.46
Exon sequences
Seq C1 exon
GATGAATTCCCTGTCCGGGAAGATCTCTCTGAAATATCTGATGATGATACCTCATTGGCAAAGCCACCGCAGCCTGTGAAATCAACAGTCCACTCCTTCAAACTGAAAAATGATTCAGACCTCTTTGGTTTGGGTTTGGAAGAAACCGGTCCCAAGGAGAGCAGCGAAGAAG
Seq A exon
ATAAACACGCTTCTAAGGAGAAGAAGAAGAAAAAGAAGAAAAGCAAAGAG
Seq C2 exon
GAAGAGGAGAAGTCTGTGAAAAAGAAGAGCAAACACAAGAAGGGCAAAGAGAAAGAGGAGAGCAAAGAGGAGAAAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008984-'24-28,'24-27,25-28=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

NA

No structure available
Features
Disorder rate (Iupred):
  C1=0.983 A=1.000 C2=1.000
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
NO


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCTGTGAAATCAACAGTCCA
R:
TGCCCTTCTTGTGTTTGCTCT
Band lengths:
148-198
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]