GgaALTD0000478-2/2 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9029052-9029934:-
Coord C1 exon
chr17:9029763-9029934
Coord A exon
chr17:9029414-9029762
Coord C2 exon
chr17:9029052-9029257
Length
349 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTGAAACCTTTCTTCTGTAGGTG
3' ss Score
9.87
Exon sequences
Seq C1 exon
AAAATCCATGATGCTAAAAATAAAGCAGGAGATTATTTGTTGACAAATGTACAGTCTGCTCAAAGCCCCTTTACGATGGCAATAATTTCATATGCTTTAGCTCTTGTGGATTTGAATCATCAGGCTGCAAGATCCTTGTTCTCTGCTCTGAAGAGGGAAGCGTCTGTCATAG
Seq A exon
GTATTGCTTATTAAATTCTCTCAAAGTGTGTATCAGACTTGATCCTCAGGTAGATTGTTCTGTTTATCATTGGCTTCTAGGTTAAATATAATTTAGAAGCATAAGAGAAGCATATATTCATCTGTATGGGAACTGTTGAATCACAGCCTGAACCTCTGATTGACCACCTGAGGCGAGCGCTGAGTCAGCCGCAGGGGCACAGGTGAACACAATTTCACCTAAGTGACCAGAAGGGGTGAAGCCTGGCTCCACCCCTCCTAGACCCCATTTAAGGGCTGACTCCCAAGCAGGAAGGATCTCTAGTTGGAGATCCTTCCTCTTGGAGCCCTTCTGTGAGCCCAGGACGCGG
Seq C2 exon
GTGACCCTCCTATCTATCGTTTTTGGAAGGATGATTTTAAAACATCAGACCTACTTGCTCCCAGCCCTGTTACTGCACAAATGGTTGAGACTACAGCATATGCATTGCTTACTGCTTTGTTAAGAGGAGATAAGAACTATGCTAATCCAATCATCAAGTGGTTGTCTGAAGAACAAAGATACGGTGGAGGATTTTACTCAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565-32-33,33-33-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(22.6=100)
A:
NA
C2:
PF076789=A2M_comp=FE(27.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTTGACAAATGTACAGTCTGCT
R:
TGAGTTGAGTAAAATCCTCCACCG
Band lengths:
342-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]