HAU0969, HAU0969 (genetic_marker) gossypium spp

Marker Overview
NameHAU0969
AliasTA22892_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TTC)9
PCR ConditionAnnealing temperature: 55.4
Primer 1HAU0969_F: TTTTCTAGAGAGATAGCGAGAGT
Primer 2HAU0969_R: AAAGCTTAGCGTTGGAGAGA
Product Length212
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D08chromosomeD08:13718866..13719068 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A08chromosomeA08:16463826..16464037 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018222.1chromosomeCM018222.1:12891599..12891802 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018209.1chromosomeCM018209.1:15883463..15883674 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:12487211..12487412 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:17767363..17767585 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_08chromosomeD10_08:49764258..49764465 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016621.1chromosomeCM016621.1:121139430..121139636 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr4chromosomeDt_chr4:22615596..22615798 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr4chromosomeAt_chr4:35885022..35885233 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D08chromosomeD08:12817978..12818180 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A08chromosomeA08:15752043..15752254 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:12783273..12783475 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:16565734..16565945 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:12420295..12420497 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:16175498..16175709 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:12280223..12280425 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:16533186..16533395 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:12920163..12920365 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A08chromosomeA08:16328973..16329184 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt08chromosomeDt08:14125712..14125921 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt08chromosomeDt08:14129813..14130016 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6956supercontigscaffold6956:88408..88617 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6956supercontigscaffold6956:92509..92712 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6956supercontigscaffold6956:90254..90411 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold7288supercontigscaffold7288:245351..245562 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D08chromosomeGbar_D08:13010333..13010536 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A08chromosomeGbar_A08:16258356..16258567 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:13082818..13083021 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A08chromosomeA08:15894535..15894746 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:13064379..13064582 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017617.1chromosomeCM017617.1:16321669..16321886 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:13523268..13523471 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017643.1chromosomeCM017643.1:16923230..16923441 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:12917683..12917886 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017695.1chromosomeCM017695.1:16112649..16112860 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:12988558..12988760 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A08chromosomeA08:17082386..17082597 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:17445890..17446115 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:17433993..17434215 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr08chromosomeChr08:12322487..12322689 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_08chromosomeB_08:17569154..17569362 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr04chromosomeChr04:12717448..12717649 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr04chromosomechr04:11149850..11150051 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_04chromosomeChr_04:10056025..10056229 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:12736446..12736653 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:9769433..9769631 +Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:8190020..8190217 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr04chromosomeChr04:9626037..9626244 +Gossypium lobatum (D7) genome ISU_v1n/a
E08chromosomeE08:21796079..21796289 +Gossypium stocksii (E1) genome NSF_v1n/a
Chr08chromosomeChr08:165619334..165619544 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0969 ID=HAU0969; Name=HAU0969; organism=Gossypium spp.; type=genetic_marker; length=212bp
TTTTCTAGAGAGATAGCGAGAGTTTCTTCTTCTTCTTCTTCTTCTTCTTC
GCTCCTGTAGAAAGTTTATTTGCTCTTCAACAATAAAAAAAATAAAAAAA
GCTTTCCTACAGCAGCGCTCAAGTTTTTATCAATCCAGAGTTTGAATTTG
AATTGAACAAATCAATATTAAGATAAGAGAAATGGCTCGCTCTCTCTCCA
ACGCTAAGCTTT