BNL2609, BNL2609 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2609
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2609_orig
Source Typegenomic
Repeat Motif(GA)16
PCR ConditionAnnealing temperature: 55
Primer 1BNL2609_F: GTTCCCATGCATGCTTTCTT
Primer 2BNL2609_R: ATAGCAGTGCAAGCAACGTG
PolymorphismP_ BNL2609
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
BNL2609_FBNL2609_FGossypium hirsutumprimer
BNL2609_RBNL2609_RGossypium hirsutumprimer


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

Feature NameUnique NameSpeciesType
BNL2609BNL2609Gossypium hirsutummarker_locus
BNL2609bBNL2609bGossypium hirsutummarker_locus
BNL2609aBNL2609aGossypium hirsutummarker_locus
BNL2609-133BNL2609-133Gossypium hirsutummarker_locus
BNL2609-1BNL2609-1Gossypium hirsutummarker_locus


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

Feature NameUnique NameSpeciesType
BNL2609_origBNL2609_origGossypium hirsutumsequence_feature


Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D04chromosomeD04:20917289..20917439 +
scaffold_1260supercontigscaffold_1260:10658..10794 -
CM018218.1chromosomeCM018218.1:18870323..18870489 +
CM018206.1chromosomeCM018206.1:82577918..82578054 +
D5_04chromosomeD5_04:32428143..32428293 -
KI_06chromosomeKI_06:58557971..58558101 -
Chr11chromosomeChr11:38361803..38361939 +
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:71842732..71842868 +
Chr7chromosomeChr7:18379973..18380123 +
D10_04chromosomeD10_04:18668540..18668682 +
CM016617.1chromosomeCM016617.1:37554773..37554909 -
Dt_chr12chromosomeDt_chr12:32840218..32840366 +
At_chr9chromosomeAt_chr9:12047582..12047720 +
D04chromosomeD04:19149057..19149207 +
scaffold1170_A05supercontigscaffold1170_A05:8008..8144 -
Ghir_D04chromosomeGhir_D04:19705619..19705767 +
Ghir_D04chromosomeGhir_D04:20049140..20049264 +
Ghir_A05chromosomeGhir_A05:88083023..88083159 +
Ghir_A05chromosomeGhir_A05:88946140..88946266 +
D04chromosomeD04:19400321..19400471 +
A05chromosomeA05:90305811..90305947 +
D04chromosomeD04:19728277..19728427 +
A05chromosomeA05:89327028..89327166 +
D04chromosomeD04:19137858..19138008 +
A05chromosomeA05:87940004..87940140 +
At03chromosomeAt03:77344766..77344902 -
At03chromosomeAt03:77341766..77341902 -
scaffold11963supercontigscaffold11963:104894..105054 +
scaffold659supercontigscaffold659:385362..385484 -
scaffold6485supercontigscaffold6485:88075..88201 -
scaffold1128supercontigscaffold1128:159616..159752 -
scaffold1128supercontigscaffold1128:156616..156752 -
Gbar_D04chromosomeGbar_D04:19056036..19056194 +
Gbar_D04chromosomeGbar_D04:19365022..19365144 +
Gbar_A05chromosomeGbar_A05:84199160..84199286 +
Gbar_A05chromosomeGbar_A05:82401374..82401510 -
D04chromosomeD04:18992668..18992820 +
A05chromosomeA05:86700150..86700286 +
CM017626.1chromosomeCM017626.1:19212947..19213119 +
CM017652.1chromosomeCM017652.1:19779921..19780079 +
CM017640.1chromosomeCM017640.1:91449281..91449417 +
CM017704.1chromosomeCM017704.1:19038304..19038458 +
CM017692.1chromosomeCM017692.1:84841104..84841240 +
Chr12chromosomeBNL2609:1..524 .
Chr12:18365956..18366479 +
Chr7chromosomeBNL2609:1..524 .
Chr7:18379780..18380303 +
Sequence
>BNL2609 ID=BNL2609|Name=BNL2609|organism=Gossypium hirsutum|type=genetic_marker|length=151bp
GTTCCCATGCATGCTTTCTTCCAAAATAACGTAACTGAGAAGGTAAAAGA
TGTGAAAACAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGGGC
AGAGACAGATGCTTATTAGTGATGGTTAAGTCACGTTGCTTGCACTGCTA
T
Map Positions
#Map NameLinkage GroupBinChromosomePositionLocus
1Monsanto SSR Bin Map, (2009)Monsanto SSR Bin Map, (2009).BIN-SSR_chr22N/AAD_chr.2250BNL2609
2AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr05N/AAD_chr.05155BNL2609
3Emian-22 x 3-79, BC1 (2011)Emian-22 x 3-79, BC1 (2011).E3-BC1_chr22N/AAD_chr.2287.5BNL2609
4AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr22N/AAD_chr.22124BNL2609
5Yumian-1 x 7235, RIL (2015)Y7-RIL_chr05N/AAD_chr.0596.6BNL2609
6CCRI 12-4 x (AD)5-7, F2 (2015)CAD5-F2_chr09N/AAt.0971.9BNL2609
7Handan-208 x Pima-90, F2:3 (2007)Handan-208 x Pima-90, F2:3 (2007).HP-F2:3_chr05N/AAD_chr.0581.3BNL2609b
8Handan-208 x Pima-90, F2:3 (2007)Handan-208 x Pima-90, F2:3 (2007).HP-F2:3_chr05N/AAD_chr.05177.2BNL2609a
9HS-46 x MARCABUCAG8US-1-88, RIL (2009)HS-46 x MARCABUCAG8US-1-88, RIL (2009).HSM-RIL_chr05N/AAD_chr.0526BNL2609-133
10Xinluzao-1 x Hai-7124, F2 (2008)Xinluzao-1 x Hai-7124, F2 (2008).XH-F2_lg17/chr22N/AAD_chr.2226.2BNL2609-1