BNL0520, BNL0520 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL0520
AliasBNL520
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL0520_orig
Source Typegenomic
Repeat Motif(AG)11
PCR ConditionAnnealing temperature: 55
Primer 1BNL0520_F: CGCTGAACCTCCATTATTTTAC
Primer 2BNL0520_R: GATCTCTTTCTCTCTCTCTCTCTCTCT
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A02chromosomeA02:18085986..18086114 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018203.1chromosomeCM018203.1:17200468..17200598 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:19113195..19113321 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:20196447..20196577 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_03chromosomeD10_03:50936791..50936915 +Gossypium turneri (D10) genome NSF_v1_a2n/a
At_chr3chromosomeAt_chr3:33477322..33477450 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A02chromosomeA02:17744694..17744822 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:18476629..18476757 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A02chromosomeA02:17163065..17163193 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:17931129..17931257 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:17651722..17651850 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At02chromosomeAt02:20174004..20174134 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold732supercontigscaffold732:148069..148195 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9041supercontigscaffold9041:25211..25341 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A02chromosomeGbar_A02:17272816..17272946 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A02chromosomeA02:17231582..17231712 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017611.1chromosomeCM017611.1:17622184..17622312 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017637.1chromosomeCM017637.1:18155968..18156098 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
A02chromosomeA02:18061239..18061367 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:113102527..113102655 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr03chromosomeChr03:110875364..110875490 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr03chromosomeChr03:110561465..110561595 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
B_03chromosomeB_03:88798189..88798313 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr05chromosomeChr05:15283519..15283645 -Gossypium thurberi (D1-5) genome CRI_v1n/a
F03chromosomeF03:17305457..17305583 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr03chromosomeChr03:175087012..175087138 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr05chromosomeBNL0520:1..353 .
Chr05:13948802..13949154 -		n/a
Chr05chromosomeBNL0520:1..355 .
Chr05:14043070..14043425 -		n/a
Chr5chromosomeBNL0520:1..355 .
Chr5:11988394..11988748 -		n/a
Chr5chromosomeBNL0520:1..355 .
Chr5:11986682..11987036 -		n/a
Chr5chromosomeBNL0520:1..355 .
Chr5:11887616..11887970 -		n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL0520_origBNL0520_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch02_At.02N/A83bnl0520View
2Xinluzao-1 x Hai-7124, F2 (2008)AD_ch02_At.02N/A106.5BNL520View
Sequence
>BNL0520 ID=BNL0520; Name=BNL0520; organism=Gossypium hirsutum; type=genetic_marker; length=129bp
CGCTGAACCTCCATTATTTTACCAATTATTCCCCAGTGTTGGACTTCATA
CATCAACCTCCAAATGATTCTTAACGAAACATCGCTAAAACACCAGCTAG
AGAGAGAGAGAGAGAGAGAGAAAGAGATC