BNL2961, BNL2961 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL2961
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL2961_orig
Source Typegenomic
Repeat Motif(GA)11
PCR ConditionAnnealing temperature: 55
Primer 1BNL2961_F: TCGAAAGGGTGTTTCTTCTT
Primer 2BNL2961_R: GGGGATGCTTGTCACATCTT
PolymorphismP_ BNL2961
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D08chromosomeD08:57541640..57541860 +
A08chromosomeA08:109517583..109517817 +
CM018222.1chromosomeCM018222.1:54055290..54055503 +
CM018209.1chromosomeCM018209.1:104991694..104991934 +
D5_08chromosomeD5_08:50381748..50381977 +
D10_08chromosomeD10_08:10725814..10726029 -
At_chr5chromosomeAt_chr5:30079153..30079373 +
D08chromosomeD08:54121768..54121988 +
A08chromosomeA08:90946008..90946244 +
Ghir_D08chromosomeGhir_D08:56749576..56749796 +
Ghir_A08chromosomeGhir_A08:108828390..108828623 +
D08chromosomeD08:57573673..57573893 +
A08chromosomeA08:111831650..111831886 +
D08chromosomeD08:56644635..56644855 +
A08chromosomeA08:111642319..111642555 +
D08chromosomeD08:53924417..53924637 +
A08chromosomeA08:107654700..107654934 +
At08chromosomeAt08:93995279..93995517 +
scaffold4670supercontigscaffold4670:62914..63152 +
scaffold12874supercontigscaffold12874:147195..147416 -
Gbar_D08chromosomeGbar_D08:54031175..54031388 +
Gbar_A08chromosomeGbar_A08:105574195..105574429 +
D08chromosomeD08:56069717..56069930 +
A08chromosomeA08:106823366..106823606 +
CM017630.1chromosomeCM017630.1:55539978..55540191 +
CM017617.1chromosomeCM017617.1:105283959..105284185 +
CM017656.1chromosomeCM017656.1:57697515..57697731 +
CM017643.1chromosomeCM017643.1:114804628..114804846 +
CM017695.1chromosomeCM017695.1:105870385..105870617 +
D08chromosomeD08:57320124..57320344 +
A08chromosomeA08:113497427..113497661 +
Chr08chromosomeChr08:118181366..118181596 +
Chr08chromosomeChr08:51266073..51266296 +
chr04chromosomechr04:39690548..39690755 +
Chr04chromosomeChr04:55060674..55060876 +
E08chromosomeE08:106034214..106034421 +
F08chromosomeF08:92186483..92186696 +
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL2961_origBNL2961_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
17235 x TM-1, RIL (2007)AD_ch24_Dt.08N/A39.1BNL2961View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch24_Dt.08N/A47.71BNL2961View
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch08_At.08N/A67.85BNL2961View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch24_Dt.08N/A41.99BNL2961View
5Palmeri x K-101, F2 (2007)AD_ch24_Dt.08N/A74.4BNL2961View
6AD-genome wide Reference Map (2009)AD_ch08_At.08N/A66BNL2961View
7Xinluzao-1 x Hai-7124, F2 (2008)AD_ch24_Dt.08N/A144.6BNL2961View
8CCRI-36 x Hai-7124, F2 (2007)AD_ch24_Dt.08N/A140BNL2961View
9AD-genome wide Reference Map (2009)AD_ch24_Dt.08N/A171BNL2961View
10(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch24_Dt.08N/A46.3BNL2961View
117235 x TM-1, F2:3 (2005)AD_ch24_Dt.08N/A10.4BNL2961View
12Yumian-1 x 7235, RIL (2015)AD_ch24_Dt.08N/A37.5BNL2961View
13CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch24_Dt.08N/A89.5BNL2961View
14Monsanto SSR Bin Map, (2009)AD_ch24_Dt.08N/A61BNL2961View
15Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch08_At.08N/A87.3BNL2961aView
16Guazuncho-2 x VH8-4602, BC2 (2005)AD_ch08_At.08N/A23.8BNL2961aView
17Handan-208 x Pima-90, F2:3 (2007)AD_ch08_At.08N/A40.2BNL2961aView
18TM-1 x 3-79, RIL (2012)AD_ch24_Dt.08N/A61.12BNL2961aView
19TM-1 x 3-79, RIL (2014)AD_ch24_Dt.08N/A64.2BNL2961aView
20Monsanto SSR Bin Map, (2009)AD_ch08_At.08N/A61BNL2961aView
21Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch24_Dt.08N/A63.5BNL2961bView
22Guazuncho-2 x VH8-4602, BC2 (2005)AD_ch24_Dt.08N/A20.6BNL2961bView
23Handan-208 x Pima-90, F2:3 (2007)AD_ch23_Dt.09N/A28BNL2961bView
24TM-1 x 3-79, RIL (2012)AD_ch08_At.08N/A79.83BNL2961bView
25TM-1 x 3-79, RIL (2014)AD_ch08_At.08N/A89.7BNL2961bView
26Monsanto SSR Bin Map, (2009)AD_ch24_Dt.08N/A41BNL2961bView
27Handan-208 x Pima-90, F2:3 (2007)AD_ch24_Dt.08N/A150.9BNL2961cView
28Yumian-1 x T586, F2:3 (2005.v0)AD_ch08_At.08N/A35.6BNL2961(A02,D03,C10)View
29Yumian-1 x T586, F2:3 (2005.v0)AD_ch24_Dt.08N/A35.6BNL2961(A02,D03,C10)View
30TM-1 x 3-79, RIL (2012.v3)AD_ch08_At.08N/A89.68BNL2961bView
31TM-1 x 3-79, RIL (2012.v3)AD_ch24_Dt.08N/A67.16BNL2961aView
32PD 94042 x (AD)4-08, F2 (2016)AD_ch24_Dt.08N/A47.6BNL2961View
Sequence
>BNL2961 ID=BNL2961; Name=BNL2961; organism=Gossypium hirsutum; type=genetic_marker; length=221bp
TCGAAAGGGTGTTTCTTCTTCTGTTATATATATATATATATAGAGAGAGA
GAGAGAGAGAGAGAAGCATGTNNAGAAATAATAAGTAAGAATATAGAAAA
AAAATAATACAAGCTTTGTAAAGAGGAATAACTTGAACTATATTTTTGAT
GAAAGACTTTGACCTAACCTTTAAGAATTTCCTCATCTGAAAACTTTGAA
AAAGATGTGACAAGCATCCCC