HIV sequence database
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Quick Align
Recombinant HIV-1
drawing tool
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Sequence Search Interface
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- Click or mouse over the field name for specific tips
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italicized fields
are listed in output by default
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Last
GenBank
update: 2009-04-05
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Sequence Information
Accession number
Subtype
Any subtype
No subtype
A
A1
A2
B
C
D
F
F1
F2
G
H
J
K
N
O
U
CRF01_AE
CRF02_AG
CRF03_AB
CRF04_cpx
CRF05_DF
CRF06_cpx
CRF07_BC
CRF08_BC
CRF09_cpx
CRF10_CD
CRF11_cpx
CRF12_BF
CRF13_cpx
CRF14_BG
CRF15_01B
CRF16_A2D
CRF18_cpx
CRF19_cpx
CRF20_BG
CRF21_A2D
CRF22_01A1
CRF23_BG
CRF24_BG
CRF25_cpx
CRF26_AU
CRF27_cpx
CRF28_BF
CRF29_BF
CRF30_0206
CRF31_BC
CRF32_06A1
CRF33_01B
CRF34_01B
CRF35_AD
CRF36_cpx
CRF37_cpx
CRF38_BF
CRF39_BF
CRF40_BF
CRF41_CD
CRF42_BF
CRF43_02G
BABOON
COLOBUS
CPZ
DEBRAZZAS
DENT's
DRILL
GORILLA
GRIVET
GSN
LHOEST
MAC
MANDRIL-1
MANDRIL-2
MNE
MONA
MUSTACHED
MUSTACHED-1
MUSTACHED-2
PATAS
RCM
SABAEUS
SMM
STM
SUN
SYKES
TALAPOIN
TANTALUS
VERVET
Sequence name
Sampling country
Sampling city
Include recombinants
exact
Sampling year
Virus
Any
HIV-1
HIV-2
SIV
SHIV
Sequence length
Include
problematic
sequences
Patient Information
Patient code
Infection country
Risk factor
Any
list field in output
Heterosexual
Male sex with male
Non-sterile medical
Mother -> Child
IV Drug User
Sexworker
Experimental
Infection year
Viral load
Only sequences with
HLA information
CD4 count
CD8 count
Other Information
Coreceptor
list field in output
only CCR5
all CCR5
only CXCR4
all CXCR4
only R5X4
all R5X4
all CCR1
all CCR2B
all CCR3
all CCR8
all GPR1
all GPR15
all STRL33
all US28
all V28
Phenotype
list field in output
NSI
SI
Only
drug naive
sequences
Author last name
Days from seroconversion
Geographic region
Any
list field in output
North America
South America
Central America
Caribbean
Oceania
Middle-East
Asia
Africa
Europe
Former USSR
Antarctica
Sub-saharan Africa
Days from infection
Pubmed/Medline ID
Other fields
Select...
Publication id
Infection city
Title
Comment
Patient id
Patient sex
Project
Progression
# of patient seqs
Patient age (days)
Patient health
Isolate name
Clone name
Sample tissue
Culture method
SE id
Find all sequences for a specific gene or region (HIV-1 and SIVcpz)
Genomic region
Any
complete genome
5' LTR
5' LTR R
5' LTR U3
5' LTR U5
TAR
Gag-Pol
Gag
p17 (matrix)
p24 (capsid)
p7 (nucleocapsid)
p6
Pol CDS
p51 (RT)
p15 (RNAse H)
p31 (integrase)
protease
Vif CDS
Vpr CDS
Tat CDS (plus intron)
Tat exon 1
Tat exon 2
Rev CDS (plus intron)
Rev exon 1
Rev exon 2
Vpu CDS
Env CDS
V1
V2
V3
V4
V5
RRE
gp41
gp120
Nef CDS
To combine database sequences with your own sequence alignment, paste
your
aligned
nucleotide sequences into the submission box below.
Or upload your
alignment
file:
Or define
start
and
end
Include fragments of minimum length
Output
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last modified: Thu Apr 9 08:47 2009
Questions
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comments? Contact us at
seq-info@lanl.gov
.