GgaALTD0001876-2/2 @ galGal4
Alternative 5'ss
Gene
ENSGALG00000004844 | SEMA6D
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:HGNC Symbol;Acc:HGNC:16770]
Coordinates
chr10:9413493-9416187:+
Coord C1 exon
chr10:9413493-9413527
Coord A exon
chr10:9413528-9413660
Coord C2 exon
chr10:9415754-9416187
Length
133 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ACGCTGCATGTCTTTTGCAGGTG
3' ss Score
10.68
Exon sequences
Seq C1 exon
ACATGAAGTTCTCCTCAGCTTCCATTACCACAATG
Seq A exon
GCAAGTATCCCAGTTATATCACCTAGAGTGATTGGTTCCTGGAAACCTAAAGTGACTGGCTCTCGGAAATTTGTAGTTCAAGATGACCCAAACACTTCTGATTATTCTGATCCATTATCAGGTGTCCCAAAGG
Seq C2 exon
GTGTAAGGTGGGAAGTGCAATCAGGAGAGTCCAACCAAATGGTACACATGAATGTCCTAATCACTTGTGTCTTTGCTGCTTTTGTCCTGGGAGCCTTTATTGCGGGAGTGGCTGTGTACTGTTATCGAGATGTGTTTGTACGGAAATCCAGGAAAATACACAAGGATGCAGAATCTGCTCAGTCCTGTACAGACTCCAGTGGGAGCTTTGCTAAACTGAATGGGCTTTTTGATAGTCCCGTCAAGGAATATCAACAAAACATCGATTCGCCCAAACTCTACACCAACCTGTTGACTAGCAGAAAGGAACTGCCACCAAATGGCGATATGAAGTCCATGATGATGGACCACAGAGGCCAGCCTCCGGAATTAGCTGCACTTCCGACTCCTGAATCCACACCGGTTCTTCAGCAAAAGACTCTGCAAGCCATGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844-21-29,22-29-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
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:
TCTCCTCAGCTTCCATTACCACA
R:
AGTTTAGCAAAGCTCCCACTGG
Band lengths:
243-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]