BNL2651, BNL2651 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2651
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2651_orig
Source Typegenomic
Repeat Motif(CT)18
PCR ConditionAnnealing temperature: 55
Primer 1BNL2651_F: CGAGTGTCTCCAAAACATCG
Primer 2BNL2651_R: AGATGATGAGGGGGAGGTTT
PolymorphismP_ BNL2651
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D02chromosomeD02:8265802..8265916 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A02chromosomeA02:8610249..8610363 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018216.1chromosomeCM018216.1:7505498..7505618 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018203.1chromosomeCM018203.1:7744131..7744241 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_03chromosomeD5_03:56357073..56357186 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_03chromosomeKI_03:5370278..5370393 +Gossypioides kirkii genome ISU_v3n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:8772153..8772283 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_03chromosomeD10_03:57757921..57758034 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016616.1chromosomeCM016616.1:142978171..142978271 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr5chromosomeDt_chr5:52668011..52668125 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A02chromosomeA02:7944229..7944343 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold114776supercontigscaffold114776:32..146 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D02chromosomeGhir_D02:7866305..7866418 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A02chromosomeGhir_A02:7898739..7898853 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D02chromosomeD02:7556228..7556342 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:7611766..7611880 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D02chromosomeD02:7902173..7902287 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:8161314..8161428 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D02chromosomeD02:7844979..7845095 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A02chromosomeA02:8139934..8140048 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold184supercontigscaffold184:183423..183543 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold34963supercontigscaffold34963:70190..70310 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D02chromosomeGbar_D02:8011038..8011156 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A02chromosomeGbar_A02:7850459..7850567 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D02chromosomeD02:7513735..7513855 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A02chromosomeA02:7800011..7800119 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017624.1chromosomeCM017624.1:8287449..8287549 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017650.1chromosomeCM017650.1:8535694..8535838 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017637.1chromosomeCM017637.1:8159318..8159432 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017702.1chromosomeCM017702.1:7924421..7924543 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017689.1chromosomeCM017689.1:7916367..7916483 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D02chromosomeD02:8129744..8129858 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A02chromosomeA02:8227373..8227487 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:123264378..123264494 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr03chromosomeChr03:122012821..122012953 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr03chromosomeChr03:7038332..7038444 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_03chromosomeB_03:98502620..98502732 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr05chromosomeChr05:7835256..7835362 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr05chromosomechr05:5839893..5839999 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_05chromosomeChr_05:5947589..5947807 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr05chromosomeChr05:7944631..7944759 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr05chromosomeChr05:5866311..5866414 +Gossypium aridum (D4) genome ISU_v1n/a
Chr05chromosomeChr05:4722331..4722569 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr05chromosomeChr05:6636217..6636321 +Gossypium lobatum (D7) genome ISU_v1n/a
E03chromosomeE03:10451274..10451383 +Gossypium stocksii (E1) genome NSF_v1n/a
F03chromosomeF03:7988802..7988912 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr03chromosomeChr03:193338011..193338121 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr05chromosomeBNL2651:1..461 .
Chr05:7137433..7137889 +
n/a
Chr5chromosomeBNL2651:1..461 .
Chr5:2561857..2562431 -
n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL2651_origBNL2651_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Xinluzao-1 x Hai-7124, F2 (2008)AD_ch02_At.02N/A80.6BNL2651View
2Emian-22 x 3-79, BC1 (2011)AD_ch02_At.02N/A69.63BNL2651View
3AD-genome wide Reference Map (2009)AD_ch02_At.02N/A48BNL2651View
4Yumian-1 x T586, RIL (2006)AD_ch14_Dt.02N/A37.8BNL2651View
5Yumian-1 x T586, RIL (2015)AD_ch14_Dt.02N/A37.3BNL2651View
6Yumian-1 x 7235, RIL (2015)AD_ch14_Dt.02N/A59.3BNL2651View
7CCRI-35 x Yumian-1, RIL (2015)AD_ch14_Dt.02N/A45BNL2651View
8TM-1 x Hai-7124, BC1 (2008)AD_ch02_At.02N/A49.19BNL2651-185View
9TM-1 x Hai-7124, BC1 (2012)AD_ch02_At.02N/A54.2BNL2651-185View
10TM-1 x Hai-7124, BC1 (2008)AD_ch14_Dt.02N/A75.27BNL2651-195View
11TM-1 x Hai-7124, BC1 (2012)AD_ch14_Dt.02N/A37.9BNL2651-195View
12Yumian-1 x T586, RIL (2009)AD_ch14_Dt.02N/A99.1BNL2651/100tView
13CCRI-35 x Yumian-1, RIL (2017)AD_ch14_Dt.02N/A45.11BNL2651View
14PD 94042 x (AD)4-08, F2 (2016)AD_ch17_Dt.03N/A256.4BNL2651View
Sequence
>BNL2651 ID=BNL2651; Name=BNL2651; organism=Gossypium hirsutum; type=genetic_marker; length=115bp
CGAGTGTCTCCAAAACATCGGTATATTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTCAGCTCCTTTATGATCATCTTCCCTTTAGGGCAAACC
TCCCCCTCATCATCT