GgaALTA0000229-2/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000027365 | HIVEP3
Description
human immunodeficiency virus type I enhancer binding protein 3 [Source:HGNC Symbol;Acc:HGNC:13561]
Coordinates
chr23:862644-870124:+
Coord C1 exon
chr23:862644-866185
Coord A exon
chr23:869979-870009
Coord C2 exon
chr23:870010-870124
Length
31 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
TTGCTCTTTTGGGGAGATAGGTT
3' ss Score
-0.15
Exon sequences
Seq C1 exon
CCCGGTCCGGTTCTCCAAGCTTTGAGGCGCTGGAGGAGTATCAGCAGCCAGCTGGCAAGCAGCCCCTTGGCAAGGCACCTTTACAAAGCGTGAAGAAAGAAGACTCCAAAGAGCCAGTGGAGCAGCCTCCACCAAGCCCTCCAAGCCCTGCACCTCTGTCCGAGGTCCCTTCAAGTGCAATGAAGTCTCGAGAAGGTACGGATATGAAGAAGGTACTTCAGTTCCCCAGTCTCCACACAACCACTAATGTCAGTTGGTGCTATTTAAACTACATAAAGCCAAATCACATCCAGCAAGTCGACCGGCGGTCTTCAGTGTATGCCAGCTGGTGTATTAGCTTGTATAACCCCAACCTTCCGGGTATATCCACTAAAGTCGCCCTGTCCCTCCTGAGGTCCAAGCAGAAGGTGAGCAGGGAAACCTACACCATGGCTACTGCTCCACGGCCAGAGGCAGGCAGGCTTGTCCCGTCCAGCTCCAGGAAGCCCAAAATGACAGAG
Seq A exon
GTTCATTTGCCTTCGCTCCTTTCTAATGAAG
Seq C2 exon
GTCGAAAAGAAATAACTAGAGCTGAGAAGGAAGAGGATAAAAGAGGAAAACCAGAAGAAGAGGCTGTTGTAACCAAAAGAGGGGAGCCAGTCAGGATCAAGATCTTTGAAGGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027365-1-2,1-1-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.684 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=2.3)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GCTCCAGGAAGCCCAAAATGA
R:
TCTTGATCCTGACTGGCTCCC
Band lengths:
128-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]