BNL3800, BNL3800 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL3800
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL3800_orig
Source Typegenomic
Repeat Motif(GT)3+A+T+(TG)3+(TA)2+(TG)21
PCR ConditionAnnealing temperature: 55
Primer 1BNL3800_F: GCCATTGATGGAAGGTCAGT
Primer 2BNL3800_R: CATCCTCGGAATTTTCCAAA
PolymorphismP_ BNL3800
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A08chromosomeA08:89993597..89993790 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018209.1chromosomeCM018209.1:85309769..85309966 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:93592463..93592648 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
At_chr4chromosomeAt_chr4:71196020..71196217 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Ghir_A08chromosomeGhir_A08:88878345..88878536 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A08chromosomeA08:92166176..92166373 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:91682475..91682672 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:88896204..88896396 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At08chromosomeAt08:74264527..74264724 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11255supercontigscaffold11255:154751..154948 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A08chromosomeGbar_A08:86117886..86118081 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A08chromosomeA08:87238243..87238692 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017617.1chromosomeCM017617.1:85835660..85835858 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017643.1chromosomeCM017643.1:95369194..95369399 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017695.1chromosomeCM017695.1:86657844..86658038 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
A08chromosomeA08:93172231..93172428 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:97074451..97074651 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:97593249..97593434 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeBNL3800:1..389 .
Chr04:39594438..39594857 +		n/a
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL3800_origBNL3800_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1HS-46 x MARCABUCAG8US-1-88, RIL (2009)AD_ch08_At.08N/A1BNL3800-198View
2AD-genome wide Reference Map (2009)AD_ch08_At.08N/A188BNL3800View
3Yumian-1 x T586, F2:7 (2008)AD_ch08_At.08N/A6.2BNL3800View
4Yumian-1 x T586, RIL (2006)AD_ch08_At.08N/A26.7BNL3800View
5(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch08_At.08N/A16BNL3800View
6Yumian-1 x T586, F2:3 (2005.v0)AD_ch08_At.08N/A0BNL3800View
7Yumian-1 x T586, F2:3 (2005.v0)AD_ch24_Dt.08N/A0BNL3800View
8Yumian-1 x T586, RIL (2015)AD_ch08_At.08N/A71.6BNL3800View
9Yumian-1 x 7235, RIL (2015)AD_ch08_At.08N/A70.3BNL3800View
10Monsanto SSR Bin Map, (2009)AD_ch08_At.08N/A101BNL3800View
11TM-1 x Hai-7124, BC1 (2007)AD_ch08_At.08N/A43.2BNL3800-200View
12TM-1 x Hai-7124, BC1 (2008)AD_ch08_At.08N/A82.59BNL3800-200View
13TM-1 x Hai-7124, BC1 (2012)AD_ch08_At.08N/A48.3BNL3800-200View
14Yumian-1 x T586, RIL (2009)AD_ch08_At.08N/A21.7BNL3800/195y(C8)View
Sequence
>BNL3800 ID=BNL3800; Name=BNL3800; organism=Gossypium hirsutum; type=genetic_marker; length=193bp
GCCATTGATGGAAGGTCAGTGTGTATTGTGTGTATATGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTGTGTGTGTGTGAAAAAGTATTTGTCTGTCGACT
ACGTAGGTGTTTGATCCAAAAAGAAAAAAAAACTAATTTCTTTCTTTNAC
TTTTTCTTTCTTTGCTTTTTTTTTTTGGAAAATTCCGAGGATG