HAU0861, HAU0861 (genetic_marker) gossypium spp

Marker Overview
NameHAU0861
Genbank IDCO130341
TypeSSR
SpeciesGossypium spp.
Source SequenceCO130341
Source TypeEST
Repeat Motif(CCT)6
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0861_F: CTCCCAACCCTAACCCTAAT
Primer 2HAU0861_R: GTGATCAATTGCAAGAGCTG
Product Length290
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankCO130341
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:53519149..53519534 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A07chromosomeA07:89281083..89281465 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:51528966..51529350 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:89219325..89219707 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:46923330..46923715 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:2892900..2893281 +Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:92601188..92601570 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:4542842..4543227 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:6990099..6990484 +Gossypium australe (G2) genome CRI_v1.1n/a
At_chr7chromosomeAt_chr7:30321600..30321982 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold56.1supercontigscaffold56.1:746035..746420 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:50681664..50682049 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:73742463..73742845 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:54774219..54774602 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:93093262..93093644 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:54003295..54003680 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:92101654..92102036 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:54314907..54315292 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:92076248..92076630 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:50786535..50786920 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:88588065..88588447 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt07chromosomeDt07:55845841..55846226 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At07chromosomeAt07:82021955..82022340 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13267supercontigscaffold13267:169770..170155 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold1819supercontigscaffold1819:1109..1494 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10365supercontigscaffold10365:82839..83224 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:51957743..51958127 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:88328983..88329365 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:52642661..52643045 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:90533443..90533825 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:52441138..52441523 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:92166416..92166798 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:53475106..53475491 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:95137730..95138112 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:52591196..52591581 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:90501361..90501743 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:54867157..54867542 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:94161217..94161599 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:95881979..95882361 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:97289177..97289559 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:4550745..4551130 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:78175886..78176271 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:51429619..51430004 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:39416762..39417147 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:34135024..34135409 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:51104898..51105283 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:36093330..36093838 -Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:28390735..28391120 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:35225899..35226284 -Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:6663185..6663562 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:78076690..78077075 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:153492441..153492825 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
CO130341CO130341Gossypium spp.sequence_feature


Sequence
>HAU0861 ID=HAU0861; Name=HAU0861; organism=Gossypium spp.; type=genetic_marker; length=290bp
CTCCCAACCCTAACCCTAATGACTCCGTGATTGGCCCGCCTCGTCCGCCA
CCTGGTCCAGTTCCTGATGAGGATGACGAAGACGTCATGGTAGGACCTCC
TCCGCCTCCTCCAGGTTCCAGTGAGGATGACGATAACGATGTCATGATTG
GGCCGCCACGCCCGCCAGTTGGGCCGAGTTCTGACTCGGAGGAGGATGGG
GAGGAGGAGAATCGTTATCGAATTCCATTAAGCAATGAGATTGTTCTCAA
AGGGCATACTAAGATTGTTTCAGCTCTTGCAATTGATCAC