DreEX6087222 @ danRer10
Exon Skipping
Gene
ENSDARG00000006896 | lhx6
Description
LIM homeobox 6 [Source:ZFIN;Acc:ZDB-GENE-041025-1]
Coordinates
chr10:9556920-9561661:+
Coord C1 exon
chr10:9556920-9557015
Coord A exon
chr10:9557107-9557281
Coord C2 exon
chr10:9559732-9561661
Length
175 bp
Sequences
Splice sites
3' ss Seq
TCAGTTGCCTTTTTTCACAGGTC
3' ss Score
9.49
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
Exon sequences
Seq C1 exon
GTAATGCAGGCTCAGTTTGCACAGGACAACAACCCTGATGCTCAAACCCTGCAGAAACTGGCGGACATGACAGGACTGAGCAGAAGAGTCATACAG
Seq A exon
GTCTGGTTTCAAAACTGCCGAGCGAGACATAAAAAGCACACTCCTCAGCACAACGGCCCTCCTCAAGCTCATCCACAGGCTCGAATGCCACCCTCGCTGCCTGACGAGCTGCATTACTCTCCATTCGGTAGTCCTGAGAGAGCACGCATGGTGGCCCTGCACGGATACATCGACA
Seq C2 exon
GTCATCCGTTCTCAGTCCTCACTACACAGAGTCTCCCTCACCAGGCCATGACGTTGCCGCAGCTTCCTCTTAGCCGCTAACACCCGCACTGACCTCTGACCCCTTCACCCCGACCTCCTCCAACCACCCCAGAGGTCCTGCTCTTGACCTCAGAACCCTGCAAGGAGAGACATGACATTGTTTCCTCACTGACTATATTGGACAGGATTTTACTCACCTGTTGAGGAAAAAAAAAAAACACACGCATGGGTGACCTGTGAATCTGCGTCTCGCTAAGACCAGGATCTGGACTTCACACTGTAAAGACTAGACTCTTCTGACTCAGCGTTTGGAGACTATGAATGCAAACAAAAGGAATGTAAAAAGTTACCAGCATCAGTGTTATAACATGTAGATTGAAAAAAGGCAAAAGCACACGCAATGTGGATGGGGAATAAATGACATAGGACCAATGGGTAAGACATATTTTCTCTTTTTTTATCCCCCTCGCTGAAATGTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006896-'7-8,'7-7,8-8=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 (Iupred):
C1=0.656 A=0.678 C2=0.654
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=FE(54.4=100)
A:
PF0004624=Homeobox=PD(19.3=18.6)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACCCTGATGCTCAAACCC
R:
TCATGTCTCTCCTTGCAGGGT
Band lengths:
243-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]