HAU0816, HAU0816 (genetic_marker) gossypium spp

Marker Overview
NameHAU0816
Genbank IDCO114921
TypeSSR
SpeciesGossypium spp.
Source SequenceCO114921
Source TypeEST
Repeat Motif(GAT)5
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0816_F: CCCTTTTCATTCCCCTTACT
Primer 2HAU0816_R: CCCCCAACTCCAACTATATG
Product Length179
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankCO114921
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D13chromosomeD13:3144557..3144731 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A13chromosomeA13:3916925..3917100 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018214.1chromosomeCM018214.1:3457106..3457281 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018227.1chromosomeCM018227.1:2917188..2917362 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:2622015..2622188 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:9368491..9368666 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_13chromosomeD10_13:2704296..2704470 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:93265793..93265968 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr7chromosomeDt_chr7:37267355..37267530 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D13chromosomeD13:3017211..3017385 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A13chromosomeA13:3530948..3531123 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D13chromosomeGhir_D13:2963642..2963816 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A13chromosomeGhir_A13:3416481..3416656 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D13chromosomeD13:2839198..2839372 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A13chromosomeA13:3510853..3511028 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:2972052..2972226 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A13chromosomeA13:3313143..3313318 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:3000746..3000920 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A13chromosomeA13:3403938..3404113 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold24115supercontigscaffold24115:3419..3594 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold36113supercontigscaffold36113:35970..36144 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold36113supercontigscaffold36113:26478..26652 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Scaffold1673supercontigScaffold1673:33374..33548 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A13chromosomeGbar_A13:3499371..3499546 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D13chromosomeD13:2765959..2766133 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A13chromosomeA13:3398146..3398321 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017635.1chromosomeCM017635.1:2823932..2824106 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017622.1chromosomeCM017622.1:3591501..3591676 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017661.1chromosomeCM017661.1:3019101..3019275 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017648.1chromosomeCM017648.1:3545760..3545935 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017713.1chromosomeCM017713.1:2849222..2849396 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017700.1chromosomeCM017700.1:3228733..3228908 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D13chromosomeD13:3079831..3080005 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A13chromosomeA13:3672979..3673154 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:3525108..3525283 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr13chromosomeChr13:9546322..9546497 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr13chromosomeChr13:2642935..2643109 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_13chromosomeB_13:91607395..91607570 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr13chromosomeChr13:2795269..2795443 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr13chromosomechr13:2735714..2735888 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_13chromosomeChr_13:3030418..3030592 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr13chromosomeChr13:2980930..2981104 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr13chromosomeChr13:2959744..2959918 +Gossypium aridum (D4) genome ISU_v1n/a
Chr13chromosomeChr13:2113366..2113540 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr13chromosomeChr13:2978910..2979084 +Gossypium lobatum (D7) genome ISU_v1n/a
F13chromosomeF13:3018468..3018643 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:111792244..111792419 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

The following sequence_feature feature(s) derives from this genetic_marker:

Feature NameUnique NameSpeciesType
CO114921CO114921Gossypium spp.sequence_feature


Sequence
>HAU0816 ID=HAU0816; Name=HAU0816; organism=Gossypium spp.; type=genetic_marker; length=179bp
CCCTTTTCATTCCCCTTACTCGATGATGAGGATGATTGATGCGATCCCCC
GAATTGAATACAAAAGAATTTATTTTGAAAGGACTTGAGCGTGGATAGGT
AAAAAATTATGTTGATTTTTTCCTTTAAACCTGACGAAAATTGGGGATAT
AGATTCCCCCATATAGTTGGAGTTGGGGG