GgaALTD0001876-3/3 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11375086-11379788:+
Coord C1 exon
chr10:11375086-11375120
Coord A exon
chr10:11375121-11375253
Coord C2 exon
chr10:11378485-11379788
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
GTGTAAGGTGGGAAGTGCAATCAGGAGAGTCCAACCAAATGGTACACATGAATGTCCTAATCACTTGTGTCTTTGCTGCTTTTGTCCTGGGAGCCTTTATTGCGGGAGTGGCTGTGTACTGTTATCGAGATGTGTTTGTACGGAAATCCAGGAAAATACACAAGGATGCAGAATCTGCTCAGTCCTGTACAGACTCCAGTGGGAGCTTTGCTAAACTGAATGGGCTTTTTGATAGTCCCGTCAAGGAATATCAACAAAACATCGATTCGCCCAAACTCTACACCAACCTGTTGACTAGCAGAAAGGAACTGCCACCAAATGGCGATATGAAGTCCATGATGATGGACCACAGAGGCCAGCCTCCGGAATTAGCTGCACTTCCGACTCCTGAATCCACACCGGTTCTTCAGCAAAAGACTCTGCAAGCCATGAAAAGTCAGTCGGACAAAGCACACGGTAACCTCAATGCTTCGCGAAAGGAAACCCCGCTAAAGAGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844-20-24,21-24,22-24-3/3
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=0.793
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]