HAU0290, HAU0290 (genetic_marker) gossypium spp

Marker Overview
NameHAU0290
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AAT)5
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0290_F: CTTAACACGGCTGGTTCTTT
Primer 2HAU0290_R: ATTTATTGGGACGAGGTCAA
Product Length188
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:52928870..52929054 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A07chromosomeA07:88660015..88660202 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:51009393..51009583 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:88644458..88644645 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:46378815..46379002 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:91988393..91988580 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:5149637..5149824 +Gossypium turneri (D10) genome NSF_v1_a2n/a
At_chr7chromosomeAt_chr7:30109052..30109239 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold56.1supercontigscaffold56.1:192125..192309 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:50123350..50123534 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:73161804..73161991 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:54221968..54222152 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:92494482..92494669 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:53470544..53470728 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:91523532..91523719 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:53762310..53762494 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:91481009..91481196 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:50234116..50234300 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:87973015..87973202 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt07chromosomeDt07:55139202..55139392 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt07chromosomeDt07:55136375..55136565 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13089supercontigscaffold13089:131324..131511 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11989supercontigscaffold11989:73448..73638 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11989supercontigscaffold11989:70621..70811 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:51375714..51375904 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:87730839..87731026 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:52087284..52087474 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:89969143..89969330 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:51849293..51849483 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:91588308..91588495 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:52883005..52883195 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:94562659..94562846 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:52001326..52001516 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:89934017..89934204 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:54314220..54314404 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:93569204..93569391 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:95294312..95294493 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:96676230..96676417 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:5094651..5094838 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:77570599..77570792 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:50838236..50838423 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_01chromosomeChr_01:33716150..33716337 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:50541040..50541227 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:35513428..35513615 -Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:34687739..34687926 -Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:7313397..7313584 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:77520649..77520824 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:152594195..152594383 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0290 ID=HAU0290; Name=HAU0290; organism=Gossypium spp.; type=genetic_marker; length=188bp
CTTAACACGGCTGGTTCTTTGTTAAAATCTGCATTGACAAATCCATACTT
CGGTCTTCTTGAAAAGATGAAAGAAGATTAGAGCTGTAAATAATGTATAA
GGTTTACAGTGATAATTTGGCTGAATGTGTAGCCAAATAATAATAATAAT
CCTCTTGAGAAATAAACATTGACCTCGTCCCAATAAAT