BtaEX6060190 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000004561 | PAX6
Description
Bos taurus paired box 6 (PAX6), mRNA. [Source:RefSeq mRNA;Acc:NM_001040645]
Coordinates
chr15:63356631-63360510:-
Coord C1 exon
chr15:63360395-63360510
Coord A exon
chr15:63357648-63357798
Coord C2 exon
chr15:63356631-63356716
Length
151 bp
Sequences
Splice sites
3' ss Seq
GTTTGCCTTTCTCCTCGCAGCCC
3' ss Score
11.64
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
Exon sequences
Seq C1 exon
TTTCCTCCTTCACCTCCGGCTCCATGTTGGGCCGAACAGACACAGCCCTCACAAACACATACAGTGCTCTGCCGCCCATGCCCAGCTTCACCATGGCGAATAATCTGCCTATGCAA
Seq A exon
CCCCCAGTCCCTAGCCAGACCTCCTCGTACTCCTGCATGCTGCCCACCAGCCCTTCGGTGAACGGGCGGAGTTATGATACCTACACCCCCCCACACATGCAAACACACATGAACAGCCAGCCGATGGGCACCTCGGGCGCCACTTCCACAG
Seq C2 exon
GACTCATTTCCCCTGGTGTGTCAGTTCCAGTTCAAGTTCCTGGAAGTGAACCTGATATGTCTCAATATTGGCCAAGATTACAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004561-'20-13,'20-12,21-13=AN
Average complexity
A_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=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCCTCCTTCACCTCCGGC
R:
TTACTGTAATCTTGGCCAATATTGAG
Band lengths:
202-353
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]