DreALTD0016636-2/4 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000011533 | sema6dl
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D, like [Source:ZFIN;Acc:ZDB-GENE-050417-171]
Coordinates
chr18:40391808-40394121:+
Coord C1 exon
chr18:40391808-40391912
Coord A exon
chr18:40391913-40391951
Coord C2 exon
chr18:40392833-40394121
Length
39 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
TTTGGCTATCTGTGTTGCAGGTG
3' ss Score
10.69
Exon sequences
Seq C1 exon
ACATGGAGTTGCCATCTTCATCAGTCACAGTGCCCGCGACTTCTGAACCCATACAATCACCCCAAACCAACCCCACTCAGACACCACAACTCTTTGAACCCCATG
Seq A exon
GTGACCCAGCCACTTCACATTCTGTTGAGCATATACCAG
Seq C2 exon
GTGTTTGGGAAATACAAGCAGGTGAATCAAACCAGATGGTGCACATGAACATCCTGATCTCCTGTGTGTTAGCTGCGTTTCTGCTTGGTGCATTCATCGCAGGCATGGTTGTTTACTGCTATAGAGATGCGTTTCTTCGCACTCCACGAAAGATCCAAAAAGATGCAGAGTCGGCACAATCCTGCACTGATTCCACTGGCAGCTTTGCCAAGCTTAACGGTCTGTTTGACAGTCCTGTCAAAGAGTACCAGCCTAATTTGGATACTCCCAAACTCTACACCAACCTGTTGAGCAATGGAAGGGAGGTGCCAACCACTGGAGAAACTAAGACTATGCTCCTGAGTGGGCAGCCACCGGAATTAGCAGCACTGCCTACGCCTGAATCCACACCTGTGCTGCAACAGAAGAGCCTCCAGCCCATTAAGAACCAGTGGGAGAGAGCTCATGGAAAGATGAGTGGCTCCCGCAAAGATGCACCACCCAAAAGCCCACAGTACCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011533-20-24,21-24,22-24,23-24-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.685 A=NA C2=0.801
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0143720=PSI=PD(20.0=3.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAACCAACCCCACTCAGAC
R:
AACGCAGCTAACACACAGGAG
Band lengths:
123-162
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]