BNL2993, BNL2993 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2993
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2993_orig
Source Typegenomic
Repeat Motif(AG)11
PCR ConditionAnnealing temperature: 55
Primer 1BNL2993_F: TAAAAAGAATAGTGATTCATAAAACTATCA
Primer 2BNL2993_R: AGACGGTTACTGCCACCATC
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D08chromosomeD08:52614314..52614466 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A08chromosomeA08:102486135..102486285 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018222.1chromosomeCM018222.1:49317200..49317352 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018209.1chromosomeCM018209.1:98025189..98025335 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:45450924..45451068 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:106668825..106668969 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_08chromosomeD10_08:15548607..15548752 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016621.1chromosomeCM016621.1:28936917..28937062 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold306.1supercontigscaffold306.1:1135617..1135767 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr10chromosomeDt_chr10:9524824..9524976 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D08chromosomeD08:49141474..49141626 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D08chromosomeD08:49139762..49139912 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A08chromosomeA08:83572213..83572363 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:51912355..51912505 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:101774050..101774200 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:52807089..52807241 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:104970258..104970408 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:51805976..51806128 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:104581675..104581825 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:49101112..49101264 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A08chromosomeA08:100634462..100634610 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At08chromosomeAt08:87180871..87181017 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At08chromosomeAt08:87176990..87177136 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12726supercontigscaffold12726:41975..42803 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold332supercontigscaffold332:95115..95261 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold332supercontigscaffold332:91234..91380 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D08chromosomeGbar_D08:49252376..49252528 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A08chromosomeGbar_A08:98721855..98722001 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:51339839..51339991 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A08chromosomeA08:99935084..99935230 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:50719046..50719198 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017617.1chromosomeCM017617.1:98178708..98178854 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:52636532..52636684 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017643.1chromosomeCM017643.1:107717903..107718045 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:49906201..49906353 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017695.1chromosomeCM017695.1:98938605..98938751 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:52408961..52409113 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A08chromosomeA08:106407902..106408052 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:110015614..110015756 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:110747719..110747863 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr08chromosomeChr08:46339269..46339413 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_08chromosomeB_08:82723205..82723342 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr04chromosomeChr04:47743416..47743560 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_04chromosomeChr_04:32154325..32154470 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:50177637..50177781 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:31267506..31267650 -Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:31421811..31421953 -Gossypium lobatum (D7) genome ISU_v1n/a
F08chromosomeF08:85595008..85595155 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr08chromosomeChr08:40405266..40405415 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL2993_origBNL2993_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch08_At.08N/A95BNL2993View
2Xinluzao-1 x Hai-7124, F2 (2008)AD_ch08_At.08N/A22.6BNL2993View
3Emian-22 x 3-79, BC1 (2011)AD_ch08_At.08N/A80.32BNL2993View
4Yumian-1 x 7235, RIL (2015)AD_ch24_Dt.08N/A44BNL2993View
5Monsanto SSR Bin Map, (2009)AD_ch08_At.08N/A81BNL2993View
Sequence
>BNL2993 ID=BNL2993; Name=BNL2993; organism=Gossypium hirsutum; type=genetic_marker; length=153bp
TAAAAAGAATAGTGATTCATAAAACTATCAAAGAGAGAGAGAGAGAGAGA
GAGGAGAAGGAATAAAGGAGAGATACGTAAATTACAAATTTTGAATGAGG
GAAAAAATTGGGAACGTGGGGATATTGGCGGAGGATGGTGGCAGTAACCG
TCT