BNL4029, BNL4029 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL4029
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL4029_orig
Source Typegenomic
Repeat Motif(TG)12, (AC)10
PCR ConditionAnnealing temperature: 55
Primer 1BNL4029_F: CGAGGGATAGAGAGGACGAA
Primer 2BNL4029_R: GTTTGATTATTATGCTTGTAAAGTTACC
PolymorphismP_ BNL4029
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D13chromosomeD13:44472669..44473061 -
A13chromosomeA13:81913862..81914108 -
CM018227.1chromosomeCM018227.1:40909585..40909981 -
CM018214.1chromosomeCM018214.1:86468739..86469155 -
D5_13chromosomeD5_13:39840195..39840592 -
KI_13chromosomeKI_13:31548768..31549189 -
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:99901454..99901844 -
D10_13chromosomeD10_13:42043730..42044120 -
Dt_chr13chromosomeDt_chr13:15256535..15256927 -
At_chr13chromosomeAt_chr13:12117986..12118232 -
D13chromosomeD13:40354132..40354524 -
A13chromosomeA13:58652724..58652970 -
Ghir_D13chromosomeGhir_D13:43777889..43778279 -
Ghir_A13chromosomeGhir_A13:85790365..85790609 -
D13chromosomeD13:45062048..45062440 -
A13chromosomeA13:88796439..88796685 -
D13chromosomeD13:43916119..43916511 -
A13chromosomeA13:86823389..86823635 -
D13chromosomeD13:40842308..40842708 -
A13chromosomeA13:85519205..85519451 -
At13chromosomeAt13:63548937..63549349 -
scaffold381supercontigscaffold381:306846..307238 +
scaffold24405supercontigscaffold24405:58822..59234 -
Gbar_D13chromosomeGbar_D13:40655780..40656172 -
Gbar_A13chromosomeGbar_A13:87710138..87710550 -
D13chromosomeD13:42057523..42057917 -
A13chromosomeA13:90750355..90750769 -
CM017622.1chromosomeCM017622.1:88204615..88205021 -
CM017661.1chromosomeCM017661.1:44835223..44835611 -
CM017648.1chromosomeCM017648.1:93027184..93027584 -
CM017713.1chromosomeCM017713.1:41969319..41969711 -
CM017700.1chromosomeCM017700.1:88715735..88716147 -
D13chromosomeD13:44917533..44917925 -
A13chromosomeA13:89049061..89049307 -
Chr13chromosomeChr13:93883287..93883681 -
Chr13chromosomeChr13:98023342..98023732 -
Chr13chromosomeChr13:39880306..39880702 -
B_13chromosomeB_13:26105720..26106094 +
Chr13chromosomeChr13:41042170..41042534 -
chr13chromosomechr13:29803882..29805032 -
Chr_13chromosomeChr_13:27988374..27988884 -
Chr13chromosomeChr13:43366144..43366534 -
Chr13chromosomeChr13:27872291..27872620 -
Chr13chromosomeChr13:21553376..21553742 -
Chr13_6357239chromosomeChr13_6357239:1930..2306 -
E13chromosomeE13:86689808..86690189 +
F13chromosomeF13:73837308..73837704 -
Chr13chromosomeBNL4029:1..402 .
Chr13:38846704..38847370 -
scaffold216supercontigBNL4029:1..402 .
scaffold216:688474..689023 +
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL4029_origBNL4029_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
1CCRI-36 x Hai-7124, F2 (2007)AD_ch13_At.13N/A78.9BNL4029aView
2TM-1 x 3-79, RIL (2012)AD_ch13_At.13N/A76.42BNL4029aView
3TM-1 x 3-79, RIL (2014)AD_ch13_At.13N/A72.7BNL4029aView
4Monsanto SSR Bin Map, (2009)AD_ch13_At.13N/A81BNL4029aView
5CCRI-36 x Hai-7124, F2 (2007)AD_ch18_Dt.13N/A121.9BNL4029bView
6TM-1 x 3-79, RIL (2012)AD_ch18_Dt.13N/A47.97BNL4029bView
7TM-1 x 3-79, RIL (2014)AD_ch18_Dt.13N/A48.8BNL4029bView
8Monsanto SSR Bin Map, (2009)AD_ch18_Dt.13N/A61BNL4029bView
9Deltapine-61 x Texas-701, F2 (2007)AD_ch13_At.13N/A13.7BNL4029-403View
10Deltapine-61 x Texas-701, F2 (2007)AD_ch13_At.13N/A22BNL4029-244View
11Emian-22 x 3-79, BC1 (2011)AD_ch13_At.13N/A106.04BNL4029View
12Guazuncho-2 x VH8-4602, consensus (2009)AD_ch13_At.13N/A81.69BNL4029View
13Guazuncho-2 x VH8-4602, RIL (2009)AD_ch13_At.13N/A32.48BNL4029View
14AD-genome wide Reference Map (2009)AD_ch18_Dt.13N/A14BNL4029View
15Yumian-1 x T586, F2:3 (2005)AD_ch13_At.13N/A0BNL4029View
16Yumian-1 x T586, F2:7 (2008)AD_ch13_At.13N/A6.9BNL4029View
17AD-genome wide Reference Map (2009)AD_ch13_At.13N/A70BNL4029View
18Yumian-1 x T586, RIL (2006)AD_ch13_At.13N/A20.7BNL4029View
19Yumian-1 x T586, F2:3 (2005.v0)AD_ch01_At.01N/A0BNL4029View
20Yumian-1 x T586, F2:3 (2005.v0)AD_ch13_At.13N/A0BNL4029View
21H18 x TM-1, F2 (2005)AD_ch13_At.13N/A108.4BNL4029View
22DH962 x Jinmian-6, F2 (2009)AD_ch18_Dt.13N/A22.5BNL4029View
23DH962 x Jinmian-6, F2 (2009)AD_ch18_Dt.13N/A22.5BNL4029View
24Yumian-1 x T586, RIL (2015)AD_ch13_At.13N/A70.2BNL4029View
25DH962 X Ji Mian 5, F2 (2015)AD_ch25_Dt.06N/A76.63BNL4029View
26Emian-22 x 3-79, BC1 (2015)AD_ch13_At.13N/A100.3BNL4029View
27CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch13_At.13N/A84.6BNL4029View
28TM-1 x Hai-7124, BC1 (2008)AD_ch13_At.13N/A40.5BNL4029-245View
29Vsg x (TM-1 x Hai-7124), DH (2005)AD_ch13_At.13N/A18.8BNL4029-245View
30TM-1 x Hai-7124, BC1 (2007)AD_ch13_At.13N/A79BNL4029-245View
31TM-1 x Hai-7124, BC1 (2012)AD_ch13_At.13N/A59.9BNL4029-245View
32Yumian-1 x T586, RIL (2009)AD_ch13_At.13N/A9.1BNL4029/270y(C13)View
33TM-1 x 3-79, RIL (2012.v3)AD_ch13_At.13N/A72.72BNL4029aView
34TM-1 x 3-79, RIL (2012.v3)AD_ch18_Dt.13N/A48.78BNL4029bView
35PD 94042 x (AD)4-08, F2 (2016)AD_ch13_At.13N/A17.3BNL4029View
Sequence
>BNL4029 ID=BNL4029; Name=BNL4029; organism=Gossypium hirsutum; type=genetic_marker; length=247bp
CGAGGGATAGAGAGGACGAAAGTACCAAAATTGCTTCAAAAACAAAACTA
AAGGAGCAAGGTCTGTTTGTCTATTTTTTCTCCATTTTGAAAATTCGAGG
AAATTTATCTATATGCAAAAAGAAAATGCAGTACAATATTCAGCAGCATC
AATATCCAATAAATCCACATTGTTCATATAATTAGATATGTGTGTGTGTG
TGTGTGTGTGTGAGAGACAGGTAACTTTACAAGCATAATAATCAAAC