BNL1161, BNL1161 (genetic_marker) Gossypium hirsutum

Marker Overview
NameBNL1161
Genbank IDN/A
TypeSSR
SpeciesGossypium hirsutum
GermplasmDeltapine 90
Source SequenceBNL1161_orig
Source Typegenomic
Repeat Motif(AG)24
PCR ConditionAnnealing temperature: 55
Primer 1BNL1161_F: CATCTCCTCTGGAAAGAGCG
Primer 2BNL1161_R: ATGAAGCAGCACATTCCATG
PolymorphismP_ BNL1161
CommentPrimer data obtained in 2000
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D10chromosomeD10:17584055..17584259 +
D10chromosomeD10:17562956..17563160 +
D10chromosomeD10:17579063..17579265 -
A10chromosomeA10:85327086..85327296 -
CM018224.1chromosomeCM018224.1:16349445..16349649 +
CM018211.1chromosomeCM018211.1:83891488..83891684 -
D5_10chromosomeD5_10:45945447..45945653 -
KI_10chromosomeKI_10:37957847..37958037 -
Chr10_CRI-A2_v1.0.a1chromosomeChr10_CRI-A2_v1.0.a1:105438068..105438270 -
D10_10chromosomeD10_10:48142914..48143116 -
CM016623.1chromosomeCM016623.1:28400253..28400453 -
At_chr11chromosomeAt_chr11:14104428..14105362 +
Dt_chr11chromosomeDt_chr11:14748375..14748579 -
D10chromosomeD10:16377447..16377651 +
scaffold152386supercontigscaffold152386:100..304 -
A10chromosomeA10:75677173..75677377 -
Ghir_D10chromosomeGhir_D10:16772954..16773158 +
Ghir_A10chromosomeGhir_A10:89213087..89213299 -
D10chromosomeD10:16377065..16377269 +
A10chromosomeA10:90664489..90664705 -
D10chromosomeD10:16968232..16968436 +
D10chromosomeD10:16921871..16922075 +
A10chromosomeA10:84523719..84523943 -
scaffold1791supercontigscaffold1791:149339..149535 +
scaffold6238supercontigscaffold6238:15237..15441 -
scaffold6238supercontigscaffold6238:12178..12382 -
Gbar_D10chromosomeGbar_D10:16172880..16173084 +
Gbar_A10chromosomeGbar_A10:84017306..84017502 -
D10chromosomeD10:16700796..16701000 +
A10chromosomeA10:85823655..85823851 -
CM017632.1chromosomeCM017632.1:16583476..16583680 +
CM017619.1chromosomeCM017619.1:85357497..85357707 -
CM017658.1chromosomeCM017658.1:16855159..16855363 +
CM017645.1chromosomeCM017645.1:92886540..92886730 -
CM017710.1chromosomeCM017710.1:16714541..16714745 +
CM017697.1chromosomeCM017697.1:87076794..87076996 -
D10chromosomeD10:17059685..17059889 +
A10chromosomeA10:92404421..92404635 -
Chr10chromosomeChr10:56046971..56047177 -
Chr10chromosomeChr10:23779416..23779618 +
Chr10chromosomeChr10:16195968..16196174 +
B_10chromosomeB_10:79324883..79325085 -
Chr11chromosomeChr11:16266602..16266802 +
Chr_11chromosomeChr_11:12058666..12058868 +
Chr11chromosomeChr11:16632430..16632636 +
Chr11chromosomeChr11:13330415..13330613 +
Chr11chromosomeChr11:10458957..10459157 +
E10chromosomeE10:87337273..87337473 -
F10chromosomeF10:19874698..19874923 +
Chr10chromosomeChr10:122470949..122471147 -
Chr11chromosomeBNL1161:1..262 .
Chr11:16256771..16257020 +
Chr06chromosomeBNL1161:1..262 .
Chr06:6025411..6025670 -
Chr11chromosomeBNL1161:1..262 .
Chr11:15852194..15852443 +
scaffold440supercontigBNL1161:1..262 .
scaffold440:276874..277133 -
Germplasm
Stock NameType
Deltapine 90accession
Relationships

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

Feature NameUnique NameSpeciesType
BNL1161_origBNL1161_origGossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch10_At.10N/A84.56BNL1161View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch23_Dt.09N/A21.28BNL1161View
3Guazuncho-2 x VH8-4602, RIL (2009)AD_ch10_At.10N/A26.55BNL1161View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch23_Dt.09N/A11.85BNL1161View
5AD-genome wide Reference Map (2009)AD_ch23_Dt.09N/A38BNL1161View
6Xinluzao-1 x Hai-7124, F2 (2008)AD_ch10_At.10N/A86.7BNL1161View
7Guazuncho-2 x VH8-4602, consensus (2009)AD_ch10_At.10N/A86.21BNL1161View
8Palmeri x K-101, F2 (2007)AD_ch10_At.10N/A111.2BNL1161View
9AD-genome wide Reference Map (2009)AD_ch10_At.10N/A163BNL1161View
10Yumian-1 x T586, RIL (2015)AD_ch09_At.09N/A16.8BNL1161View
11Yumian-1 x 7235, RIL (2015)AD_ch09_At.09N/A28BNL1161View
12CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch10_At.10N/A75BNL1161View
13SG 747 x Giza 75, BIL (2013)AD_ch10_At.10N/A40.1BNL1161View
14Monsanto SSR Bin Map, (2009)AD_ch10_At.10N/A61BNL1161View
15Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch10_At.10N/A97.4BNL1161bView
16Guazuncho-2 x VH8-4602, BC2 (2005)AD_ch10_At.10N/A75.8BNL1161bView
17TM-1 x 3-79, RIL (2012)AD_ch23_Dt.09N/A125.68BNL1161bView
18TM-1 x 3-79, RIL (2014)AD_ch23_Dt.09N/A20.5BNL1161bView
19Monsanto SSR Bin Map, (2009)AD_ch23_Dt.09N/A121BNL1161bView
20Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch23_Dt.09N/A76.5BNL1161aView
21Guazuncho-2 x VH8-4602, BC2 (2005)AD_ch23_Dt.09N/A24.6BNL1161aView
22TM-1 x 3-79, RIL (2012)AD_ch10_At.10N/A57.56BNL1161aView
23TM-1 x 3-79, RIL (2014)AD_ch10_At.10N/A61.1BNL1161aView
24Monsanto SSR Bin Map, (2009)AD_ch10_At.10N/A61BNL1161aView
25Handan-208 x Pima-90, F2:3 (2007)AD_ch10_At.10N/A156.5BNL1161b*View
26TM-1 x Hai-7124, BC1 (2007)AD_ch10_At.10N/A50.6BNL1161-195View
27TM-1 x Hai-7124, BC1 (2008)AD_ch10_At.10N/A63.01BNL1161-195View
28Vsg x (TM-1 x Hai-7124), DH (2005)AD_ch10_At.10N/A124.2BNL1161-195View
29TM-1 x Hai-7124, BC1 (2012)AD_ch10_At.10N/A65.1BNL1161-195View
30Yumian-1 x T586, F2:3 (2005.v0)AD_ch09_At.09N/A5.7BNL1161(C9,C23,C10)View
31Yumian-1 x T586, F2:3 (2005.v0)AD_ch23_Dt.09N/A5.7BNL1161(C9,C23,C10)View
32TM-1 x 3-79, RIL (2012.v3)AD_ch10_At.10N/A61.07BNL1161aView
33TM-1 x 3-79, RIL (2012.v3)AD_ch23_Dt.09N/A20.51BNL1161bView
34PD 94042 x (AD)4-08, F2 (2016)AD_ch10_At.10N/A94.4BNL1161View
Sequence
>BNL1161 ID=BNL1161; Name=BNL1161; organism=Gossypium hirsutum; type=genetic_marker; length=219bp
CATCTCCTCTGGAAAGAGCGCCGTACTTTACCTGGCTATCCATTCTAATT
GGTGCTGCTTTGACCCCAAGTTTCTGTTTGAATCTCAGTACTTTCATTAT
ATTCACTACATTAAAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAG
AGAGAGAGAGAGAGGAGAGTACTTGGGCAATTAAACTGGATAGATCATGC
ATGGAATGTGCTGCTTCAT