BNL3590, BNL3590 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL3590
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL3590_orig
Source Typegenomic
Repeat Motif(CA)20
PCR ConditionAnnealing temperature: 55
Primer 1BNL3590_F: TCTTCCCTCTCTTTCTCTTTCG
Primer 2BNL3590_R: ACACGGAAGACCAACCAAGT
PolymorphismP_ BNL3590
CommentPrimer data obtained in 2000
Germplasm
Stock NameType
Deltapine 90obsolete_cultivar
Relationships

This genetic_marker is adjacent to the following primer feature(s):

Feature NameUnique NameSpeciesType
BNL3590_FBNL3590_FGossypium hirsutumprimer
BNL3590_RBNL3590_RGossypium hirsutumprimer


The following marker_locus feature(s) are an instance of this genetic_marker:

Feature NameUnique NameSpeciesType
BNL3590aBNL3590aGossypium hirsutummarker_locus
BNL3590bBNL3590bGossypium hirsutummarker_locus
BNL3590BNL3590Gossypium hirsutummarker_locus
BNL3590-180BNL3590-180Gossypium hirsutummarker_locus
BNL3590-265BNL3590-265Gossypium hirsutummarker_locus
BNL3590-215BNL3590-215Gossypium hirsutummarker_locus
BNL3590-185BNL3590-185Gossypium hirsutummarker_locus
BNL3590BNL3590-53.247Gossypium hirsutummarker_locus
BNL3590aBNL3590a-61.478Gossypium hirsutummarker_locus
BNL3590bBNL3590b-53.733Gossypium hirsutummarker_locus
BNL3590BNL3590-114.8Gossypium hirsutummarker_locus


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

Feature NameUnique NameSpeciesType
BNL3590_origBNL3590_origGossypium hirsutumsequence_feature


Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D03chromosomeD03:32782002..32782191 +
A02chromosomeA02:43720721..43720902 -
CM018217.1chromosomeCM018217.1:33536958..33537133 +
CM018203.1chromosomeCM018203.1:42174788..42174963 -
D5_02chromosomeD5_02:27604258..27604419 +
Chr6chromosomeChr6:108138582..108138747 -
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:84077070..84077235 +
Chr3chromosomeChr3:10108369..10108530 -
D10_02chromosomeD10_02:32220387..32220552 +
CM016615.1chromosomeCM016615.1:74412676..74412843 +
Dt_chr3chromosomeDt_chr3:38672635..38672808 -
D03chromosomeD03:26940735..26940924 +
A02chromosomeA02:40971023..40971204 -
Ghir_D03chromosomeGhir_D03:32934297..32934486 +
D03chromosomeD03:34563338..34563527 +
A02chromosomeA02:43134826..43135007 -
D03chromosomeD03:33860846..33861019 +
A02chromosomeA02:43453217..43453398 -
D03chromosomeD03:33280492..33280681 +
A02chromosomeA02:42906378..42906561 -
Dt03chromosomeDt03:28482782..28482957 +
At02chromosomeAt02:44229420..44229595 -
scaffold2657supercontigscaffold2657:107468..107643 +
scaffold4364supercontigscaffold4364:32550..32725 -
Gbar_D03chromosomeGbar_D03:31950975..31951152 +
Gbar_A02chromosomeGbar_A02:42714004..42714179 -
D03chromosomeD03:34555284..34555461 +
A02chromosomeA02:43160491..43160666 -
CM017625.1chromosomeCM017625.1:32926531..32926704 +
CM017611.1chromosomeCM017611.1:42434659..42434832 -
CM017651.1chromosomeCM017651.1:36926719..36926890 +
CM017637.1chromosomeCM017637.1:45023598..45023775 -
CM017703.1chromosomeCM017703.1:34354458..34354637 +
CM017689.1chromosomeCM017689.1:42947707..42947882 -
Chr03chromosomeBNL3590:1..374 .
Chr03:18634806..18635151 -
Chr3chromosomeBNL3590:1..374 .
Chr3:10108189..10108534 -
Sequence
>BNL3590 ID=BNL3590|Name=BNL3590|organism=Gossypium hirsutum|type=genetic_marker|length=190bp
TCTTCCCTCTCTTTCTCTTTCGTATCTGTCACCTCTTCCATGCTCTTTGT
TACTGAAAAGGGTATATTCTGAAACCATTAAACAAGAAAAATAGCTTATA
TCTATATCCACACACACACACACACACACACACACACACACACACACATA
TATATATATAACTCACCTTGACTTGGTTGGTCTTCCGTGT
Map Positions
#Map NameLinkage GroupBinChromosomePositionLocus
13-79 x NM24016, RIL (2008)3-79 x NM24016, RIL (2008).3N-RIL_chr02N/AAD_chr.020BNL3590a
2CCRI-36 x Hai-7124, F2 (2007)CCRI-36 x Hai-7124, F2 (2007).CH-F2_chr17N/AAD_chr.1772.6BNL3590a
3Guazuncho-2 x VH8-4602, BC2 (2005)Guazuncho-2 x VH8-4602, BC2 (2005).GV-BC2_chr02N/AAD_chr.0227.8BNL3590a
4Monsanto SSR Bin Map, (2009)Monsanto SSR Bin Map, (2009).BIN-SSR_chr02N/AAD_chr.0270BNL3590a
5TM-1 x 3-79, RIL (2012)TM-1 x 3-79, RIL (2012).T3-RIL.12_c02N/AAD_chr.0260.68BNL3590a
6TM-1 x 3-79, RIL (2014)T3-RIL.14_chr02N/AAD_chr.0261.5BNL3590a
7SG 747 x Giza 75, BIL (2013)SG-BIL_chr02N/AAD_chr.0260.6BNL3590a
83-79 x NM24016, RIL (2008)3-79 x NM24016, RIL (2008).3N-RIL_chr02N/AAD_chr.0210.5BNL3590b
9CCRI-36 x Hai-7124, F2 (2007)CCRI-36 x Hai-7124, F2 (2007).CH-F2_chr02N/AAD_chr.0245.3BNL3590b
10Guazuncho-2 x VH8-4602, BC2 (2005)Guazuncho-2 x VH8-4602, BC2 (2005).GV-BC2_chr17N/AAD_chr.1779BNL3590b
11Handan-208 x Pima-90, F2:3 (2007)Handan-208 x Pima-90, F2:3 (2007).HP-F2:3_chr17N/AAD_chr.17123.6BNL3590b
12TM-1 x 3-79, RIL (2012)TM-1 x 3-79, RIL (2012).T3-RIL.12_c17N/AAD_chr.1771.21BNL3590b
13TM-1 x 3-79, RIL (2014)T3-RIL.14_chr17N/AAD_chr.1753.7BNL3590b
14SG 747 x Giza 75, BIL (2013)SG-BIL_chr17N/AAD_chr.1728.4BNL3590b
157235 x TM-1, RIL (2007)7235 x TM-1, RIL (2007).7T-RIL_A02N/AAD_chr.020BNL3590
16Guazuncho-2 x VH8-4602, BC1 (2005)Guazuncho-2 x VH8-4602, BC1 (2005).GV-BC1_chr02N/AAD_chr.0257.4BNL3590
17Guazuncho-2 x VH8-4602, consensus (2009)Guazuncho-2 x VH8-4602, consensus (2009).GV-cons_c02N/AAD_chr.0236.31BNL3590
18Handan-208 x Pima-90, F2:3 (2007)Handan-208 x Pima-90, F2:3 (2007).HP-F2:3_chr02N/AAD_chr.0215BNL3590
19AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr17N/AAD_chr.17115BNL3590
20Xinluzao-1 x Hai-7124, F2 (2008)Xinluzao-1 x Hai-7124, F2 (2008).XH-F2_lg6/chr02N/AAD_chr.02142.1BNL3590
21Acala-44 x Pima S-7, F2 (2004)Acala-44 x Pima S-7, F2 (2004).AP-F2_lg17N/AAD_unknown120.2BNL3590
22Emian-22 x 3-79, BC1 (2011)Emian-22 x 3-79, BC1 (2011).E3-BC1_chr02N/AAD_chr.0276.83BNL3590
23AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr02N/AAD_chr.02125BNL3590
24(YM-1 x CCRI-35) x (YM-1 x 7235), 4WC (2012)YCY7-4WC_chr02-2N/AAD_chr.0272.6BNL3590
257235 x TM-1, F2:3 (2005)7T-F2:3_chr02N/AAD_chr.020BNL3590
26Yumian-1 x 7235, RIL (2015)Y7-RIL_chr17N/AAD_chr.1741.8BNL3590
27TM-1 x (TX-0256 + TX-1046), CSIL (2016)TTT-CSIL_chr17N/AAD_chr.1747.5BNL3590
28W10 x TM-1, F2:3 (2015)WT-F2:3_chr09-1N/AAD_chr.095.3BNL3590
29CCRI-35 x Yumian-1, RIL (2015)CY-RIL_chr02N/AAD_chr.0262.2BNL3590
30TM-1 x Hai-7124, BC1 (2007)TM-1 x Hai-7124, BC1 (2007).TH-BC1_chr02N/AAD_chr.0264BNL3590-180
31TM-1 x Hai-7124, BC1 (2008)TM-1 x Hai-7124, BC1 (2008).TH-BC1.08_chr02/A2N/AAD_chr.0250.68BNL3590-180
32Vsg x (TM-1 x Hai-7124), DH (2005)Vsg x (TM-1 x Hai-7124), DH (2005).VTH-DH.05_chr02N/AAD_chr.0254.9BNL3590-180
33TM-1 x Hai-7124, BC1 (2007)TM-1 x Hai-7124, BC1 (2007).TH-BC1_chr17N/AAD_chr.1759.7BNL3590-265
34TM-1 x Hai-7124, BC1 (2008)TM-1 x Hai-7124, BC1 (2008).TH-BC1.08_chr17/D3N/AAD_chr.1717.77BNL3590-265
35Vsg x (TM-1 x Hai-7124), DH (2005)Vsg x (TM-1 x Hai-7124), DH (2005).VTH-DH.05_chr17N/AAD_chr.1735.3BNL3590-265
36TM-1 x Hai-7124, BC1 (2007)TM-1 x Hai-7124, BC1 (2007).TH-BC1_chr17N/AAD_chr.1785.5BNL3590-215
37TM-1 x Hai-7124, BC1 (2008)TM-1 x Hai-7124, BC1 (2008).TH-BC1.08_chr17/D3N/AAD_chr.174.8BNL3590-215
38Vsg x (TM-1 x Hai-7124), DH (2005)Vsg x (TM-1 x Hai-7124), DH (2005).VTH-DH.05_chr17N/AAD_chr.1750.3BNL3590-215
39Vsg x (TM-1 x Hai-7124), DH (2005)Vsg x (TM-1 x Hai-7124), DH (2005).VTH-DH.05_chr02N/AAD_chr.0273.8BNL3590-185
40CCRI-35 x Yumian-1, RIL (2017)CY-RIL.17_chr02N/AAt.0253.25BNL3590
41TM-1 x 3-79, RIL (2012.v3)T3-RIL.12v3_chr.02N/AAD_chr.0261.48BNL3590a
42TM-1 x 3-79, RIL (2012.v3)T3-RIL.12v3_chr.17N/AAD_chr.1753.73BNL3590b
43PD 94042 x (AD)4-08, F2 (2016)PA-F2_chr17-1N/ADt.03114.8BNL3590