BNL1579, BNL1579 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL1579
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL1579_orig
Source Typegenomic
Repeat Motif(AG)17
PCR ConditionAnnealing temperature: 55
Primer 1BNL1579_F: CATGAGAACTTCATGCATATTCA
Primer 2BNL1579_R: ATTTAAGTGCCTCCGTCCCT
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A09chromosomeA09:66986175..66986373 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018223.1chromosomeCM018223.1:37539555..37539753 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018210.1chromosomeCM018210.1:62688791..62688987 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_09chromosomeD5_09:31360013..31360190 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr09_CRI-A2_v1.0.a1chromosomeChr09_CRI-A2_v1.0.a1:69457171..69457391 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_09chromosomeD10_09:12064979..12065189 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016622.1chromosomeCM016622.1:19372518..19372742 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr6chromosomeAt_chr6:50058821..50059019 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr6chromosomeDt_chr6:12209906..12210114 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D09chromosomeD09:37614882..37615090 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold92349supercontigscaffold92349:252..450 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A09chromosomeGhir_A09:66826281..66826477 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D09chromosomeD09:39374148..39374356 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A09chromosomeA09:68643155..68643353 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D09chromosomeD09:39404904..39405112 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A09chromosomeA09:68580726..68580924 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D09chromosomeD09:37469232..37469440 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A09chromosomeA09:65475492..65475690 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold7369supercontigscaffold7369:90065..90261 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D09chromosomeGbar_D09:38232019..38232213 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A09chromosomeGbar_A09:63140557..63140751 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D09chromosomeD09:40759292..40759490 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A09chromosomeA09:64586680..64586880 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017631.1chromosomeCM017631.1:38435056..38435250 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017618.1chromosomeCM017618.1:64346325..64346525 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017657.1chromosomeCM017657.1:39852915..39853123 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017644.1chromosomeCM017644.1:67297581..67297787 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017709.1chromosomeCM017709.1:39036180..39036378 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017696.1chromosomeCM017696.1:64517533..64517731 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D09chromosomeD09:41079151..41079359 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A09chromosomeA09:69899503..69899701 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr09chromosomeChr09:68683618..68683806 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr09chromosomeChr09:71920647..71920871 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr09chromosomeChr09:37589386..37589567 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_09chromosomeB_09:56054938..56055143 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr06chromosomeChr06:38057272..38057445 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_06chromosomeChr_06:26171201..26171519 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr06chromosomeChr06:39459099..39459301 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr06chromosomeChr06:21469742..21470030 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeChr06:26510923..26511125 +Gossypium lobatum (D7) genome ISU_v1n/a
E09chromosomeE09:16926119..16926303 -Gossypium stocksii (E1) genome NSF_v1n/a
F09chromosomeF09:57299555..57299779 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr6chromosomeBNL1579:1..232 .
Chr6:29543393..29543597 +		n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL1579_origBNL1579_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch23_Dt.09N/A91.7BNL1579View
2AD-genome wide Reference Map (2009)AD_ch23_Dt.09N/A117BNL1579View
3Xinluzao-1 x Hai-7124, F2 (2008)AD_ch23_Dt.09N/A63.9BNL1579View
4Emian-22 x 3-79, BC1 (2011)AD_ch23_Dt.09N/A83.07BNL1579View
5Yumian-1 x T586, RIL (2006)AD_ch23_Dt.09N/A0BNL1579View
6Yumian-1 x T586, RIL (2015)AD_ch23_Dt.09N/A37.7BNL1579View
7Monsanto SSR Bin Map, (2009)AD_ch23_Dt.09N/A61BNL1579View
8Handan-208 x Pima-90, F2:3 (2007)AD_ch23_Dt.09N/A46.7BNL1579aView
9Yumian-1 x T586, RIL (2009)AD_ch23_Dt.09N/A0BNL1579/200t(C23)View
Sequence
>BNL1579 ID=BNL1579; Name=BNL1579; organism=Gossypium hirsutum; type=genetic_marker; length=209bp
CATGAGAACTTCATGCATATTCACCAATTAAAGAAAAAGAAACATTTCAA
TGTTTTACATATATGTTGGACTACCTTTTAGAGTTTATTATCATAATTTT
ATATCTTAAGATTATATATCTTAAGGCTATATATATATATATATATATAT
ATATAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGGGACGGAGG
CACTTAAAT