GgaALTD0001698-2/3 @ galGal3
Alternative 5'ss
Gene
ENSGALG00000004467 | CLIP1_CHICK
Description
NA
Coordinates
chr15:5890309-5892731:-
Coord C1 exon
chr15:5892015-5892731
Coord A exon
chr15:5891805-5892014
Coord C2 exon
chr15:5890309-5890425
Length
210 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGT
5' ss Score
8.46
3' ss Seq
CATTTAACCATCTTTGTTAGGTT
3' ss Score
5.71
Exon sequences
Seq C1 exon
AGAAGTTTGAAAGCAGTGAAGAAGCGCTGCGGAAAGAGATCAAAACACTTTCAGCTTCAAATGAGAGAATGGGAAAAGAAAACGAATCATTGAAAACTAAGCTTGATCATGCCAACAAAGAGAATTCAGACGTAATAGAGCTGTGGAAATCGAAGCTGGAATCTGCAATTGCTTCCCATCAGCAAGCAATGGAAGAACTGAAAGTTTCTTTCAACAAAGGTGTAGGGGCTCAGACAGCAGAATTTGCAGAGTTAAAAACTCAGATGGAGAAGGTTAAATTAGACTACGAAAATGAAATGTCAAATCTAAAACTGAAGCAGGAAAATGAAAAATCTCAGCATTTAAAGGAGATTGAAGCACTGAAGGCAAAATTGCTGGAGGTCACAGAGGAGAAAGAGCAAACCCTGGAAAACCTGAAGGCCAAACTGGAAAGTGTGGAAGATCAGCATCTAGTAGAAATGGAAGACACTTTAAACAAATTACAGGAAGCTGAAATAAAG
Seq A exon
GTAAAGGAGCTAGATGTACTGCAAGCCAAGTGCAATGAACAAACCAAACTTATTGGTAGTCTTACACAACAGATCAGAGCTTCTGAAGAAAAGCTTTTGGACCTTGCTGCACTTCAGAAAGCCAATTCTGAAGGTAAATTGGAAATCCAGAAACTTAGCGAGCAGCTTCAGGCAGCTGAGAAACAGATACAGAATTTAGAGACTGAAAAG
Seq C2 exon
GTTAGTAATCTGACCAAAGAACTGCAGGGCAAAGAGCAAAAGCTTCTTGACCTTGAGAAAAATTTGAGTGCAGTAAATCAAGTTAAAGATTCTTTGGAAAAGGAACTTCAACTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004467-16-13,17-13,18-13-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.267 A=NA C2=0.077
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
AGGTGTAGGGGCTCAGACAG
R:
GCAGTTCTTTGGTCAGATTACTAAC
Band lengths:
308-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]