GgaEX0018235 @ galGal3
Exon Skipping
Gene
ENSGALG00000012123 | PAX6_CHICK
Description
NA
Coordinates
chr5:5255551-5257773:-
Coord C1 exon
chr5:5257658-5257773
Coord A exon
chr5:5256571-5256721
Coord C2 exon
chr5:5255551-5255962
Length
151 bp
Sequences
Splice sites
3' ss Seq
ATGCTGCTCTGTCCTTGCAGCCC
3' ss Score
11.02
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
TTTCCTCTTTCACATCAGGTTCCATGTTGGGCAGGACAGACACAGCGCTCACGAACACGTACAGCGCACTGCCGCCCATGCCCAGCTTCACCATGGCCAACAACCTGCCTATGCAA
Seq A exon
CCCCCGGTACCCAGCCAGACCTCCTCCTACTCTTGCATGCTGCCCACCAGCCCGTCGGTGAATGGCCGGAGCTATGACACCTACACCCCTCCGCACATGCAGACACACATGAATAGCCAGCCCATGGGCACCTCTGGCACCACTTCCACAG
Seq C2 exon
GTCTCATTTCCCCTGGAGTGTCAGTTCCAGTTCAAGTTCCTGGCAGTGAACCTGACATGTCTCAGTATTGGCCAAGATTACAGTAAAACATGTGTTAATTCTGTAAATGACTATATGGACAACAGTTGGATGTTCAGCAGTATTTTCTAAAGGAAGAATGGCTCTCAGAGTACTTCTGTACTGCAACTGTGCCCTACGCTGTAACACATGGAAAAGACTCTAACATGGACCTTTGTACACTGAAGGCATTATATCGGTTGGAACAAATCTTCATTTTGGTATCCAAACTTTTATTCATTTTGGTGTATTATTTGTAAATGGGCATTTGTATGTTATAATGAAAAAAAAAAAAGAACAATGTAGACTGGATGGATGTTTGATCTGTGTTGGTCATGAAGTTGTTTTAAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012123-'11-15,'11-14,12-15
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (disopred):
C1=1.000 A=1.000 C2=0.821
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCACCATGGCCAACAACCT
R:
CCATGTGTTACAGCGTAGGGC
Band lengths:
242-393
Functional annotations
There are 1 annotated functions for this event
PMID: 10329718
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: . ELM ID: ELMI001441; ELM sequence: GLISPGV; Overlap: PARTIAL_RIGHT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]