JESPR0167, JESPR0167 (genetic_marker) Gossypium hirsutum

Marker Overview
NameJESPR0167
AliasJESPR167
Genbank IDAF351405
TypeSSR
SpeciesGossypium hirsutum
GermplasmTamcot Sphinx
Source SequenceAF351405.1
Source Typegenomic
Repeat Motif(CTCTT)5(CT)2G(CTCTT)2
Primer 1JESPR0167_F: CTCCCCTCTTCTCTTGTTGTC
Primer 2JESPR0167_R: GTCAACAACACTTGAAGCAC
Publication[view all]
CommentPrimer data obtained in 2002
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAF351405
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D12chromosomeD12:23291706..23291813 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018226.1chromosomeCM018226.1:21582259..21582371 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:43586366..43586478 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D5_04chromosomeD5_04:29574069..29574196 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D5_09chromosomeD5_09:19667744..19667851 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_13chromosomeD10_13:40374484..40374605 +Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_13chromosomeD10_13:35985611..35985733 +Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_13chromosomeD10_13:35992677..35992779 +Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_02chromosomeD10_02:17685778..17685885 +Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_04chromosomeD10_04:21738652..21738780 -Gossypium turneri (D10) genome NSF_v1_a2n/a
scaffold257.1supercontigscaffold257.1:314063..314170 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D12chromosomeD12:21378612..21378719 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D10chromosomeD10:18715906..18716018 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Scaffold374supercontigScaffold374:412275..412372 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Scaffold374supercontigScaffold374:404649..404733 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D12chromosomeGhir_D12:23674101..23674208 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D09chromosomeGhir_D09:26926585..26926687 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D09chromosomeGhir_D09:27114076..27114163 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D04chromosomeGhir_D04:23142778..23142860 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D03chromosomeGhir_D03:17732316..17732413 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D12chromosomeD12:22843548..22843655 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:18668307..18668419 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D12chromosomeD12:23435450..23435557 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D12chromosomeD12:21592729..21592836 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt09chromosomeDt09:26369799..26369891 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt09chromosomeDt09:26372071..26372163 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt09chromosomeDt09:26576360..26576447 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt09chromosomeDt09:26573872..26573959 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt09chromosomeDt09:405813..405890 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12800supercontigscaffold12800:164340..164422 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10318supercontigscaffold10318:160950..161062 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9803supercontigscaffold9803:382394..382486 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9634supercontigscaffold9634:43174..43266 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold9634supercontigscaffold9634:41789..41881 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold7983supercontigscaffold7983:83911..83988 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6372supercontigscaffold6372:582475..582569 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4936supercontigscaffold4936:111859..111941 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold4584supercontigscaffold4584:117323..117420 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3155supercontigscaffold3155:73978..74065 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3155supercontigscaffold3155:71490..71577 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Scaffold2633_ERROPOS159243supercontigScaffold2633_ERROPOS159243:107415..107497 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D13chromosomeGbar_D13:34481925..34482017 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D12chromosomeGbar_D12:21675248..21675360 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D03chromosomeGbar_D03:17636502..17636599 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D01chromosomeGbar_D01:34238070..34238167 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D13chromosomeGbar_D13:23097928..23098022 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D09chromosomeGbar_D09:25472749..25472841 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D09chromosomeGbar_D09:25660258..25660345 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D09chromosomeGbar_D09:413504..413581 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D04chromosomeGbar_D04:22246214..22246296 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D12chromosomeD12:22357768..22357870 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017634.1chromosomeCM017634.1:21772475..21772572 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017660.1chromosomeCM017660.1:22621464..22621576 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017658.1chromosomeCM017658.1:19237482..19237594 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017712.1chromosomeCM017712.1:22606972..22607084 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D12chromosomeD12:23383201..23383308 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:29258582..29258709 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr09chromosomeChr09:24893328..24893435 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr08chromosomeChr08:22688523..22688635 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr12chromosomeChr12:22103222..22103333 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr11chromosomeChr11:18943632..18943739 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr13chromosomechr13:18332390..18332496 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr08chromosomeChr08:23861929..23862050 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:11844659..11844778 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr06chromosomeJESPR0167:3..356 .
Chr06:19618730..19619062 +		n/a
Chr12chromosomeJESPR0167:3..356 .
Chr12:21215088..21215425 -		n/a
Chr10chromosomeJESPR0167:3..356 .
Chr10:36618483..36618815 -		n/a
Chr6chromosomeJESPR0167:3..356 .
Chr6:4079974..4080306 +		n/a
Chr6chromosomeJESPR0167:3..356 .
Chr6:4072355..4072687 +		n/a
Chr6chromosomeJESPR0167:3..356 .
Chr6:14241172..14241504 +		n/a
scaffold211supercontigJESPR0167:3..356 .
scaffold211:1057651..1058023 -		n/a
Germplasm
Stock NameType
Tamcot Sphinxaccession
Relationships

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

Feature NameUnique NameSpeciesType
AF351405.1AF351405.1Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Monsanto SSR Bin Map, (2009)AD_ch23_Dt.09N/A101JESPR167bView
2Monsanto SSR Bin Map, (2009)AD_ch26_Dt.12N/A81JESPR167aView
3TM-1 x Hai-7124, BC1 (2008)AD_ch20_Dt.10N/A55.49JESPR167-145View
4TM-1 x Hai-7124, BC1 (2012)AD_ch20_Dt.10N/A58.9JESPR167-145View
5TM-1 x Hai-7124, BC1 (2008)AD_ch18_Dt.13N/A67.9JESPR167-110View
6TM-1 x Hai-7124, BC1 (2012)AD_ch18_Dt.13N/A53.7JESPR167-110View
7TM-1 x Hai-7124, BC1 (2008)AD_ch23_Dt.09N/A56.59JESPR167-95View
8TM-1 x Hai-7124, BC1 (2012)AD_ch23_Dt.09N/A53.8JESPR167-95View
9Xinluzao-1 x Hai-7124, F2 (2008)AD_ch12_At.12N/A74.6JESPR167View
Sequence
>JESPR0167 ID=JESPR0167; Name=JESPR0167; organism=Gossypium hirsutum; type=genetic_marker; length=108bp
CTCCCCTCTTCTCTTGTTGTCAAACCCTCTCTCTTCTCTTCTCTTCTCTT
CTCTTCTCTGCTCTTCTCTTCTTCTCCTCTTCATTCTAGTGCTTCAAGTG
TTGTTGAC