HAU0800, HAU0800 (genetic_marker) gossypium spp

Marker Overview
NameHAU0800
Genbank IDCO108117
TypeSSR
SpeciesGossypium spp.
Source SequenceCO108117
Source TypeEST
Repeat Motif(TACA)6
PCR ConditionAnnealing temperature: 57.4
Primer 1HAU0800_F: TGGTTATGCAGAGTTCAACG
Primer 2HAU0800_R: AACCCCAACAACCCTATTCT
Product Length194
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankCO108117
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A02chromosomeA02:89904052..89904396 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
scaffold_3857supercontigscaffold_3857:9545..9754 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D03chromosomeD03:144175..144384 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018203.1chromosomeCM018203.1:99372909..99373249 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_02chromosomeD5_02:449481..449777 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_06chromosomeKI_06:39940583..39941296 -Gossypioides kirkii genome ISU_v3n/a
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:591398..591742 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_02chromosomeD10_02:412072..412389 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016615.1chromosomeCM016615.1:511445..511757 -Gossypium australe (G2) genome CRI_v1.1n/a
A02chromosomeA02:82912481..82912825 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:107558467..107558811 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A02chromosomeA02:107758528..107758872 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:105215717..105216061 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:103796936..103797280 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A02chromosomeGbar_A02:99687709..99688049 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A02chromosomeA02:101624716..101625056 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017611.1chromosomeCM017611.1:104601936..104602260 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017637.1chromosomeCM017637.1:109393703..109394063 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:101776437..101776769 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A06chromosomeA06:35152349..35152558 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A02chromosomeA02:107702924..107703268 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D03chromosomeD03:522882..523091 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr02chromosomeChr02:102011808..102012152 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr02chromosomeChr02:459944..460240 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_04chromosomeB_04:73412260..73412584 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr03chromosomeChr03:457338..457639 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr03chromosomechr03:438676..438996 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr03chromosomeChr03:469215..469506 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr03_5407509chromosomeChr03_5407509:147..464 +Gossypium aridum (D4) genome ISU_v1n/a
E02chromosomeE02:253056..253243 -Gossypium stocksii (E1) genome NSF_v1n/a
F02chromosomeF02:428367..428694 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr02chromosomeChr02:139140306..139140610 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
CO108117CO108117Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
10-153 x sGK9708, RIL (2016)AD_ch02_At.02N/A35HAU800View
2Yumian-1 x 7235, RIL (2015)AD_ch17_Dt.03N/A0HAU0800View
3CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch02_At.02N/A167.1HAU0800View
4CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch17_Dt.03N/A138.8HAU0800View
5MGG-293-793, MAGIC (2018)AD_ch02_At.02N/A143HAU0800aView
Sequence
>HAU0800 ID=HAU0800; Name=HAU0800; organism=Gossypium spp.; type=genetic_marker; length=194bp
TGGTTATGCAGAGTTCAACGCCCGCTATGCTAATCAGTTCTTGCAGGACC
TACATACATACATGCATACATACATGAAGTTTTAAGCTTTGATTGTATGA
GCTAGGGGCCAAAATTTTGAAGCTAAAACCATGGGGGGTTTATGTTGCAG
GACTTATATGGATTAGGAGCAAGAAGAATAGGGTTGTTGGGGTT