HAU3012, HAU3012 (genetic_marker) gossypium spp

Marker Overview
NameHAU3012
Genbank IDES842487
TypeSSR
SpeciesGossypium spp.
Source SequenceES842487.1
Source TypeEST
Repeat Motif(CATCGT)3
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU3012_F: CATCGCCACGAGGAGTAGCC
Primer 2HAU3012_R: GCTAGCCCCCATGACGAACC
Product Length274
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankES842487
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D06chromosomeD06:56751682..56751955 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A06chromosomeA06:107443716..107443983 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018220.1chromosomeCM018220.1:51579580..51579847 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018207.1chromosomeCM018207.1:102819428..102819695 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_06chromosomeD5_06:49677917..49678184 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_06chromosomeKI_06:55512059..55512326 +Gossypioides kirkii genome ISU_v3n/a
Chr06_CRI-A2_v1.0.a1chromosomeChr06_CRI-A2_v1.0.a1:115298651..115298918 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_06chromosomeD10_06:11321218..11321485 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016619.1chromosomeCM016619.1:31379489..31379756 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr10chromosomeDt_chr10:3811804..3812172 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr10chromosomeAt_chr10:53645986..53646253 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D06chromosomeD06:53001920..53002193 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A06chromosomeA06:90953421..90953688 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D06chromosomeGhir_D06:55240677..55240950 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A06chromosomeGhir_A06:110073549..110073816 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D06chromosomeD06:54420544..54420817 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A06chromosomeA06:113156386..113156653 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D06chromosomeD06:54453939..54454212 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A06chromosomeA06:112023301..112023568 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D06chromosomeD06:51725337..51725604 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A06chromosomeA06:107916266..107916533 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt06chromosomeDt06:54613114..54613381 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt06chromosomeDt06:54608604..54608871 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold658supercontigscaffold658:553484..553751 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6232supercontigscaffold6232:24214..24481 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6232supercontigscaffold6232:19704..19971 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D06chromosomeGbar_D06:51754894..51755161 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A06chromosomeGbar_A06:101740131..101740398 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D06chromosomeD06:51962943..51963210 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A06chromosomeA06:104937074..104937341 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017628.1chromosomeCM017628.1:52357547..52357814 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017615.1chromosomeCM017615.1:107834671..107834938 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017654.1chromosomeCM017654.1:55226190..55226457 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017641.1chromosomeCM017641.1:112757508..112757775 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017706.1chromosomeCM017706.1:52281668..52281935 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017693.1chromosomeCM017693.1:106141361..106141628 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D06chromosomeD06:55166129..55166402 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A06chromosomeA06:114198619..114198886 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr06chromosomeChr06:113102205..113102472 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr06chromosomeChr06:115296144..115296411 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr06chromosomeChr06:49444237..49444504 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_06chromosomeB_06:11691150..11691417 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr10chromosomeChr10:51787485..51787752 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr10chromosomechr10:39578452..39578719 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_10chromosomeChr_10:35783738..35784005 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr10chromosomeChr10:53411986..53412253 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr10chromosomeChr10:33884993..33885260 -Gossypium aridum (D4) genome ISU_v1n/a
Chr10chromosomeChr10:29027982..29028249 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr10chromosomeChr10:34720364..34720631 -Gossypium lobatum (D7) genome ISU_v1n/a
E06chromosomeE06:18716427..18716694 -Gossypium stocksii (E1) genome NSF_v1n/a
F06chromosomeF06:86914786..86915053 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr06chromosomeChr06:31694577..31694844 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
ES842487.1ES842487.1Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch22_Dt.04N/A50.67HAU3012View
2Yumian-1 x T586, RIL (2015)AD_ch25_Dt.06N/A61.7HAU3012View
3GX1135 x VGX100-2, RIL (2016)AD_ch25_Dt.06N/A0HAU3012View
4CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch25_Dt.06N/A37.4HAU3012View
Sequence
>HAU3012 ID=HAU3012; Name=HAU3012; organism=Gossypium spp.; type=genetic_marker; length=274bp
CATCGCCACGAGGAGTAGCCATGGTATTGGCTCTGATTGCAGCAGTGGTT
CTATCTCCATGGTACGTTAGGAGGAAACATGAGATGCGTTATTATGATTT
GAAATTGAGCTCTGGATTTGTTCTTCCAATGGTTTTAGCAGGGCTTCTAA
TTGCCATTAGGACCACATCGTCATCGTCATCGTCATCGATGCCAAGTGGA
GGTAAAGCCTGGCTAATTCCATCTCCAGATCCAACGTGGGTGTCCAGAAT
TGGGGGTTCGTCATGGGGGCTAGC