BNL3084, BNL3084 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL3084
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL3084_orig
Source Typegenomic
Repeat Motif(GA)12
PCR ConditionAnnealing temperature: 55
Primer 1BNL3084_F: TGTTCATAAAATGAAATCCAAGC
Primer 2BNL3084_R: AGTGCGCGACGTAAGTAACC
PolymorphismP_ BNL3084
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysis
D08chromosomeD08:32423051..32423213 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
CM018222.1chromosomeCM018222.1:34661029..34661187 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
D5_08chromosomeD5_08:28066421..28066580 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1
CM016621.1chromosomeCM016621.1:51078902..51079068 +Gossypium australe (G2) genome CRI_v1.1
Dt_chr4chromosomeDt_chr4:35012891..35013053 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
D08chromosomeD08:30134199..30134361 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1
Ghir_D08chromosomeGhir_D08:35669560..35669722 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
D08chromosomeD08:34090061..34090223 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
D08chromosomeD08:33088067..33088227 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1
D08chromosomeD08:30811347..30811509 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
Dt08chromosomeDt08:30381427..30381585 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold1408supercontigscaffold1408:201676..201834 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
Gbar_D08chromosomeGbar_D08:31441908..31442066 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
D08chromosomeD08:32973581..32973739 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
CM017630.1chromosomeCM017630.1:32933545..32933711 -Gossypium tomentosum (AD3) genome HGS_v1.1
CM017656.1chromosomeCM017656.1:36731490..36731648 -Gossypium mustelinum (AD4) genome JGI_v1.1
CM017708.1chromosomeCM017708.1:34754249..34754407 -Gossypium darwinii (AD5) genome HGS_v1.1
D08chromosomeD08:36752283..36752445 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
Chr08chromosomeChr08:28676894..28677053 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1
B_08chromosomeB_08:50034129..50034286 +Gossypium anomalum (B1) genome NSF_v1
Chr04chromosomeChr04:30047452..30047614 +Gossypium thurberi (D1-5) genome CRI_v1
Chr04chromosomeChr04:31840096..31840268 +Gossypium davidsonii (D3d-8) genome CRI_v1
Chr04chromosomeChr04:19421549..19421711 +Gossypium aridum (D4) genome ISU_v1
Chr04chromosomeChr04:16019126..16019288 +Gossypium gossypioides (D6) genome ISU_v1
Chr04chromosomeChr04:19354827..19354997 +Gossypium lobatum (D7) genome ISU_v1
E08chromosomeE08:59247151..59247307 +Gossypium stocksii (E1) genome NSF_v1
F08chromosomeF08:51526325..51526487 +Gossypium longicalyx (F1) genome NSF_v1
Chr08chromosomeChr08:76482573..76482733 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1
Chr04chromosomeBNL3084:1..597 .
Chr04:28531890..28532483 +
scaffold287supercontigBNL3084:1..597 .
scaffold287:1134904..1135497 -
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL3084_origBNL3084_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch24_Dt.08N/A31.38BNL3084View
2Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch24_Dt.08N/A114.6BNL3084View
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch24_Dt.08N/A79.41BNL3084View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch24_Dt.08N/A64.19BNL3084View
5AD-genome wide Reference Map (2009)AD_ch18_Dt.13N/A47BNL3084View
6AD-genome wide Reference Map (2009)AD_ch08_At.08N/A82BNL3084View
7TM-1 x 3-79, RIL (2012)AD_ch24_Dt.08N/A19.8BNL3084View
8Xinluzao-1 x Hai-7124, F2 (2008)AD_ch24_Dt.08N/A91.3BNL3084View
9CCRI-36 x Hai-7124, F2 (2007)AD_ch24_Dt.08N/A114.9BNL3084View
10AD-genome wide Reference Map (2009)AD_ch24_Dt.08N/A113BNL3084View
11TM-1 x 3-79, RIL (2006)AD_ch08_At.08N/A65.7BNL3084View
12TM-1 x 3-79, RIL (2014)AD_ch24_Dt.08N/A23.7BNL3084View
13Monsanto SSR Bin Map, (2009)AD_ch24_Dt.08N/A81BNL3084View
14Handan-208 x Pima-90, F2:3 (2007)AD_ch18_Dt.13N/A66.7BNL3084dView
15Handan-208 x Pima-90, F2:3 (2007)AD_ch23_Dt.09N/A166.8BNL3084bView
16Handan-208 x Pima-90, F2:3 (2007)AD_ch24_Dt.08N/A0BNL3084cView
17Handan-208 x Pima-90, F2:3 (2007)AD_ch24_Dt.08N/A71.9BNL3084aView
18TM-1 x Hai-7124, BC1 (2008)AD_ch24_Dt.08N/A89.86BNL3084-165View
19TM-1 x Hai-7124, BC1 (2007)AD_ch24_Dt.08N/A21BNL3084-165View
20Vsg x (TM-1 x Hai-7124), DH (2005)AD_ch24_Dt.08N/A86.6BNL3084-165View
21TM-1 x Hai-7124, BC1 (2012)AD_ch24_Dt.08N/A78.3BNL3084-165View
22TM-1 x 3-79, RIL (2012.v3)AD_ch24_Dt.08N/A23.74BNL3084View
Sequence
>BNL3084 ID=BNL3084; Name=BNL3084; organism=Gossypium hirsutum; type=genetic_marker; length=163bp
TGTTCATAAAATGAAATCCAAGCTATGAAAAAATGGAACTGTTATTGATT
CAGTNGAGAGAGAGAGAGAGAGAGAGAGAAAGGACATTTTGATTTTGACT
GCAATTTGAAAGAAGATGAAGAAAATTGCGGAAACGGGCAGATGGTTACT
TACGTCGCGCACT