HAU1001, HAU1001 (genetic_marker) gossypium spp

Marker Overview
NameHAU1001
AliasTA23806_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CAGCTT)6
PCR ConditionAnnealing temperature: 56.9
Primer 1HAU1001_F: ACAGGATGTGCATGTTATGG
Primer 2HAU1001_R: ATCTCTTGATTTGGGGTCAA
Product Length292
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D01chromosomeD01:5156023..5156302 -
A01chromosomeA01:7558075..7558360 -
CM018215.1chromosomeCM018215.1:5730078..5730375 -
CM018202.1chromosomeCM018202.1:6833181..6833466 -
D5_01chromosomeD5_01:5447119..5447398 -
KI_01chromosomeKI_01:4488061..4488334 -
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:7772310..7772589 -
D10_01chromosomeD10_01:54931054..54931333 +
CM016614.1chromosomeCM016614.1:8275741..8276020 -
At_chr2chromosomeAt_chr2:6842992..6843277 -
At_chr2chromosomeAt_chr2:7203579..7203858 -
D01chromosomeD01:4848794..4849073 -
A01chromosomeA01:6404290..6404575 -
Ghir_D01chromosomeGhir_D01:6044677..6044956 -
Ghir_A01chromosomeGhir_A01:6895307..6895592 -
D01chromosomeD01:5702095..5702374 -
A01chromosomeA01:6540101..6540386 -
A01chromosomeA01:6884677..6884962 -
D01chromosomeD01:5903232..5903511 -
A01chromosomeA01:6831863..6832148 -
Dt01chromosomeDt01:4571346..4571637 -
Dt01chromosomeDt01:4569148..4569433 -
scaffold12512supercontigscaffold12512:32992..33595 +
scaffold12512supercontigscaffold12512:35154..35439 +
scaffold10110supercontigscaffold10110:87629..87920 -
scaffold10110supercontigscaffold10110:85431..85716 -
Gbar_D01chromosomeGbar_D01:6347365..6347662 -
Gbar_A01chromosomeGbar_A01:6796431..6796716 -
D01chromosomeD01:6114690..6114987 -
A01chromosomeA01:6527084..6527369 -
CM017623.1chromosomeCM017623.1:5875116..5875407 -
CM017610.1chromosomeCM017610.1:7801891..7802176 -
CM017649.1chromosomeCM017649.1:6602462..6602753 -
CM017636.1chromosomeCM017636.1:6805859..6806144 -
CM017701.1chromosomeCM017701.1:6010190..6010481 -
CM017688.1chromosomeCM017688.1:6929139..6929424 -
D01chromosomeD01:6159772..6160051 -
A01chromosomeA01:6856714..6856999 -
Chr01chromosomeChr01:6842401..6842680 -
Chr01chromosomeChr01:7584840..7585119 -
Chr01chromosomeChr01:5438020..5438299 -
B_01chromosomeB_01:7261650..7261929 -
Chr02chromosomeChr02:5817918..5818197 -
chr02chromosomechr02:6176928..6177207 -
Chr_02chromosomeChr_02:5886767..5887046 -
Chr02chromosomeChr02:6107402..6107687 -
Chr02chromosomeChr02:7192561..7192828 -
Chr02chromosomeChr02:4940398..4940683 -
Chr02chromosomeChr02:6536920..6537187 -
E01chromosomeE01:8154002..8154281 -
F01chromosomeF01:5826309..5826588 -
Chr01chromosomeChr01:191431699..191431978 +
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch15_Dt.01N/A43.65HAU1001View
2(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch01_At.01N/A7.5HAU1001View
3Yumian-1 x T586, RIL (2015)AD_ch01_At.01N/A31.7HAU1001View
4Yumian-1 x 7235, RIL (2015)AD_ch01_At.01N/A72.4HAU1001View
5DH962 X Ji Mian 5, F2 (2015)AD_ch01_At.01N/A53.64HAU1001View
6DH962 X Ji Mian 5, F2 (2015)AD_ch15_Dt.01N/A53.64HAU1001View
7GX1135 x GX100-2, RIL (2016)AD_ch01_At.01N/A9.4HAU1001View
8DH962 x Ji Mian 5, RIL (2015)AD_ch01_At.01N/A68.1HAU1001View
9DH962 x Ji Mian 5, RIL (2015)AD_ch15_Dt.01N/A68.1HAU1001View
10CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch15_Dt.01N/A128.2HAU1001View
110-153 x sGK9708, RIL (2016)AD_ch01_At.01N/A2.1HAU1001aView
120-153 x sGK9708, RIL (2016)AD_ch01_At.01N/A5.2HAU1001bView
13TM-1 x Hai-7124, BC1 (2012)AD_ch15_Dt.01N/A92.9HAU1001-280View
Sequence
>HAU1001 ID=HAU1001; Name=HAU1001; organism=Gossypium spp.; type=genetic_marker; length=292bp
ACAGGATGTGCATGTTATGGCAGATACATTGTCAGGGCTATTTGAAGAAA
AATGGGCAGCTATAGAGTCTGAGTCTAACCTTAATAGGAGGTTCGAAAGG
AGTCATGATTACAATTTGCCAACTCCCACTTCAAGGAGAATTCCAGCTTC
AGCTCCAGCTCCAGCTCCAGCTTCAGCACCAATTCAATCTCATGGCCCTC
CTGCTTTAGCTCATTCATCACTACCATTAGAAGCTAGGACTCTTGAGAGG
TCAGAATCCATGACAATGCCTGTTGACCCCAAATCAAGAGAT