HAU0251, HAU0251 (genetic_marker) gossypium spp

Marker Overview
NameHAU0251
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(AACA)4
PCR ConditionAnnealing temperature: 56.6
Primer 1HAU0251_F: CTTAGAGGGCCAGTATCGAA
Primer 2HAU0251_R: AAAAAGGTTCACAACTCAACAG
Product Length245
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D04chromosomeD04:53976692..53976945 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A04chromosomeA04:80068338..80068582 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018218.1chromosomeCM018218.1:51880299..51880552 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:78663574..78663818 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:2277056..2277296 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_2_4chromosomeKI_2_4:1957538..1957783 -Gossypioides kirkii genome ISU_v3n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:2856227..2856471 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_04chromosomeD10_04:50151700..50151952 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016617.1chromosomeCM016617.1:125000749..125000998 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr12chromosomeDt_chr12:1326363..1326603 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D04chromosomeD04:48960690..48960943 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A04chromosomeA04:60787906..60788150 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:53790129..53790381 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:82706109..82706353 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:54491202..54491455 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:85415519..85415763 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:53633392..53633645 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:82955718..82955961 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:51661261..51661514 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:78625144..78625387 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt04chromosomeDt04:50173259..50173512 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold2076supercontigscaffold2076:95552..95805 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4058supercontigscaffold4058:137798..138042 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4058supercontigscaffold4058:134522..134766 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4058supercontigscaffold4058:144881..145120 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D04chromosomeGbar_D04:49937960..49938213 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:79139629..79139873 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D04chromosomeD04:54971002..54971255 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:79542375..79542619 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:51960261..51960514 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017613.1chromosomeCM017613.1:81175971..81176215 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017652.1chromosomeCM017652.1:54760279..54760532 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:89700662..89700906 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017704.1chromosomeCM017704.1:52198327..52198580 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:79675566..79675810 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:55570940..55571193 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:86716497..86716741 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:106648103..106648347 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:108429966..108430210 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:2232951..2233191 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_02chromosomeB_02:2718663..2718908 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr12chromosomeChr12:51885237..51885490 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr12chromosomechr12:27836844..27837097 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr12_3552124chromosomeChr12_3552124:9383..9636 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr12chromosomeChr12:51763964..51764217 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr12chromosomeChr12:26158219..26158471 +Gossypium aridum (D4) genome ISU_v1n/a
Chr12chromosomeChr12:20276086..20276338 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr12chromosomeChr12:25119901..25120155 +Gossypium lobatum (D7) genome ISU_v1n/a
E04chromosomeE04:103077746..103077990 +Gossypium stocksii (E1) genome NSF_v1n/a
F04chromosomeF04:88948986..88949230 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr04chromosomeChr04:175296019..175296263 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr04chromosomeChr04:175300549..175300796 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Yumian-1 x T586, RIL (2015)AD_ch04_At.04N/A75.7HAU0251View
2Yumian-1 x 7235, RIL (2015)AD_ch04_At.04N/A70.8HAU0251View
Sequence
>HAU0251 ID=HAU0251; Name=HAU0251; organism=Gossypium spp.; type=genetic_marker; length=245bp
CTTAGAGGGCCAGTATCGAACTAAAGATCTCGGTGGGCAAAGCACTACCC
AGGAAGTTGTTGATGCTGTTATTGCTAAACTAGATTGATTGCTAGTCTTC
TTCTTCACTATGGGTTCTCCACAGTAAGATTTTCTTAAGTTGGTATATCT
CATTCTTACATTTTCAGAATAATATTTTTTTTCGAAATACTCGAAAATCG
AACTTATAACAAACAACAAACAACTGTTGAGTTGTGAACCTTTTT