BNL3441, BNL3441 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL3441
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL3441_orig
Source Typegenomic
Repeat Motif(AC)18, (AT)2(AC)18(AT)4
PCR ConditionAnnealing temperature: 55
Primer 1BNL3441_F: CGTCATAAACCGTGCTTGTG
Primer 2BNL3441_R: GGCCACTTTAAGGCTGTCAC
PolymorphismP_ BNL3441
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A03chromosomeA03:19584216..19584425 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018204.1chromosomeCM018204.1:19212256..19212457 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
At_chr12chromosomeAt_chr12:64481257..64481466 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A03chromosomeA03:18355732..18355941 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A03chromosomeGhir_A03:20485254..20485465 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A03chromosomeA03:19615508..19615717 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A03chromosomeA03:20285700..20285909 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A03chromosomeA03:19570140..19570349 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A03chromosomeGbar_A03:19224782..19224983 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A03chromosomeA03:19156949..19157150 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017612.1chromosomeCM017612.1:19645807..19646010 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017648.1chromosomeCM017648.1:50356083..50356293 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017638.1chromosomeCM017638.1:20208292..20208505 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017690.1chromosomeCM017690.1:19254474..19254671 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A03chromosomeA03:20625910..20626119 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL3441_origBNL3441_origGossypium hirsutumsequence_feature


Image
File NameLegend
48_FISH_TAG-115-675.jpgTwenty-six individual cotton mitotic chromosomes with FISH signals derived from the chromosome-speciWc BACs, and comparisons of linkage and FISH maps. [Image from Wang 2007, TAG-115-675]
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
13-79 x NM24016, RIL (2008)AD_ch03_At.03N/A0BNL3441View
2CCRI-36 x Hai-7124, F2 (2007)AD_ch03_At.03N/A19BNL3441View
3Emian-22 x 3-79, BC1 (2011)AD_ch03_At.03N/A83.35BNL3441View
4Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch03_At.03N/A39.7BNL3441View
5Guazuncho-2 x VH8-4602, consensus (2009)AD_ch03_At.03N/A35.73BNL3441View
6Xinluzao-1 x Hai-7124, F2 (2008)AD_ch03_At.03N/A34BNL3441View
7AD-genome wide Reference Map (2009)AD_ch03_At.03N/A65BNL3441View
8TM-1 x 3-79, RIL (2006)AD_ch03_At.03N/A52BNL3441View
9TM-1 x 3-79, RIL (2012)AD_ch03_At.03N/A68.58BNL3441View
10T582 x Hai-7124, F2 (2010)AD_ch03_At.03N/A66.6BNL3441View
11TM-1 x 3-79, RIL (2014)AD_ch03_At.03N/A47.8BNL3441View
12CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch03_At.03N/A107.3BNL3441View
13SG 747 x Giza 75, BIL (2013)AD_ch03_At.03N/A59.2BNL3441View
14Monsanto SSR Bin Map, (2009)AD_ch03_At.03N/A81BNL3441View
15Monsanto SSR Bin Map, (2009)AD_ch03_At.03N/A61BNL3441aView
16TM-1 x Hai-7124, BC1 (2007)AD_ch03_At.03N/A66.6BNL3441-205View
17TM-1 x Hai-7124, BC1 (2008)AD_ch03_At.03N/A64.45BNL3441-205View
18Vsg x (TM-1 x Hai-7124), DH (2005)AD_ch03_At.03N/A36.2BNL3441-205View
19TM-1 x Hai-7124, BC1 (2012)AD_ch03_At.03N/A60.5BNL3441-205View
20TM-1 x 3-79, RIL (2012.v3)AD_ch03_At.03N/A47.79BNL3441View
21PD 94042 x (AD)4-08, F2 (2016)AD_ch03_At.03N/A129BNL3441View
Sequence
>BNL3441 ID=BNL3441; Name=BNL3441; organism=Gossypium hirsutum; type=genetic_marker; length=210bp
CGTCATAAACCGTGCTTGTGATTATCTCTAAGCATTTATACTAACACTTG
AAATTCAGTGAAAAAATGAGTAGAAACATACTTGATATTTATATTTTATA
TTAAACCCAAGAACTTAGTATTAATTAAAAACATGAATTGAATATATATG
TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTNATATGTGACAGCCT
TAAAGTGGCC