BNL3405, BNL3405 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL3405
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL3405_orig
Source Typegenomic
Repeat Motif(CA)19
PCR ConditionAnnealing temperature: 55
Primer 1BNL3405_F: CCAAAGACAAAGGAGTCCCA
Primer 2BNL3405_R: ATGTCTGATTAAGTTTGCAATCA
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D06chromosomeD06:20191634..20191733 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018220.1chromosomeCM018220.1:18920098..18920217 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM016619.1chromosomeCM016619.1:103392245..103392344 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr10chromosomeDt_chr10:27382953..27383052 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D06chromosomeD06:19216230..19216329 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D06chromosomeGhir_D06:19837849..19837948 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A06chromosomeGhir_A06:32129441..32129518 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D06chromosomeD06:19338218..19338317 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D06chromosomeD06:19787368..19787467 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D06chromosomeD06:19345322..19345419 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold11802supercontigscaffold11802:29505..29870 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D06chromosomeGbar_D06:19100611..19100730 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A06chromosomeGbar_A06:30095238..30095315 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D06chromosomeD06:18844772..18844887 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017628.1chromosomeCM017628.1:19647806..19647943 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017654.1chromosomeCM017654.1:19263156..19263299 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017706.1chromosomeCM017706.1:19136309..19136478 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D06chromosomeD06:20037944..20038043 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:19544368..19544465 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr10chromosomeChr10:20347327..20347430 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr10chromosomeChr10:14237000..14237095 +Gossypium lobatum (D7) genome ISU_v1n/a
Chr06chromosomeChr06:140625092..140625190 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL3405_origBNL3405_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch25_Dt.06N/A106BNL3405View
2Xinluzao-1 x Hai-7124, F2 (2008)AD_ch25_Dt.06N/A101.6BNL3405View
3Emian-22 x 3-79, BC1 (2011)AD_ch25_Dt.06N/A74.22BNL3405View
4Monsanto SSR Bin Map, (2009)AD_ch25_Dt.06N/A61BNL3405View
5Handan-208 x Pima-90, F2:3 (2007)AD_ch25_Dt.06N/A283.5BNL3405a*View
Sequence
>BNL3405 ID=BNL3405; Name=BNL3405; organism=Gossypium hirsutum; type=genetic_marker; length=100bp
CCAAAGACAAAGGAGTCCCAGGATGCTCAAGGCTCACCACACACACACAC
ACACACACACACACACACACACACAGATGATTGCAAACTTAATCAGACAT