HAU3160, HAU3160 (genetic_marker) gossypium spp

Marker Overview
NameHAU3160
Genbank IDGR709969
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(TGG)5
PCR ConditionAnnealing temperature: 56.0
Primer 1HAU3160_F: GTTCGTGATGCAGCCAGGGA
Primer 2HAU3160_R: AAGATACACGGCCGAATGGC
Product Length280
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankGR712881
DB:genbankGR709969
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D09chromosomeD09:43004545..43004932 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A09chromosomeA09:71141104..71141490 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:40787380..40787767 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:66649978..66650364 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:34500239..34500626 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_09chromosomeKI_09:31219386..31219773 -Gossypioides kirkii genome ISU_v3n/a
Chr09_CRI-A2_v1.0.a1chromosomeChr09_CRI-A2_v1.0.a1:73775257..73775644 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_09chromosomeD10_09:9104476..9104855 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:13976778..13977165 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr5chromosomeDt_chr5:8323321..8323708 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr6chromosomeAt_chr6:56360310..56360696 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:40684889..40685276 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A09chromosomeA09:66076481..66076867 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D09chromosomeGhir_D09:42835474..42835861 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A09chromosomeGhir_A09:70912339..70912725 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:42414589..42414976 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A09chromosomeA09:72568010..72568396 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:42581658..42582045 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A09chromosomeA09:72677054..72677440 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:40666883..40667270 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A09chromosomeA09:69290295..69290681 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt07chromosomeDt07:17394013..17394400 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6024supercontigscaffold6024:309075..309461 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6024supercontigscaffold6024:296759..297145 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2301supercontigscaffold2301:163328..163715 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D09chromosomeGbar_D09:41471743..41472130 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A09chromosomeGbar_A09:67088884..67089270 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:43940346..43940733 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:68580007..68580393 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:41718894..41719281 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017618.1chromosomeCM017618.1:68516459..68516845 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:43094216..43094603 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017644.1chromosomeCM017644.1:71399409..71399795 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:42274605..42274992 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017696.1chromosomeCM017696.1:68568496..68568882 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:44284965..44285352 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A09chromosomeA09:74055140..74055526 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:73175947..73176334 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr09chromosomeChr09:76018991..76019378 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr09chromosomeChr09:40722952..40723339 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_09chromosomeB_09:60110895..60111282 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr06chromosomeChr06:41259250..41259637 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_06chromosomeChr_06:28372610..28372997 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr06chromosomeChr06:42571403..42571790 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:31348451..31348838 -Gossypium aridum (D4) genome ISU_v1n/a
Chr06chromosomeChr06:23522715..23523102 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:28889203..28889589 -Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:12715347..12715734 +Gossypium stocksii (E1) genome NSF_v1n/a
F09chromosomeF09:60968671..60969058 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr09chromosomeChr09:118643982..118644369 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch23_Dt.09N/A109.4HAU3160View
Sequence
>HAU3160 ID=HAU3160; Name=HAU3160; organism=Gossypium spp.; type=genetic_marker; length=280bp
GTTCGTGATGCAGCCAGGGAAGCTGCTCTCCGAGAAATCAAGGAAAGGAT
CAAGAAGACTAAGGATGAAAAGAAGGCAAAGAAGGCAGAAGTAGCAGCGA
AGCAACAGAAGACACAAGGCAAGGGTAACCCTCCAAAGGGTGGTGCACCC
AAAGGTCCCAAGCTTGGTGGTGGTGGTGGAAAGCGATAAGTTTACCCAGT
TATTATCTGTTTTTACATAGGTAGTATGTTGATTTTGAAGGCATTTGTAT
GGACTGAATGGCCATTCGGCCGTGTATCTT