CSIRO_D5chr11_53982359 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCSIRO_D5chr11_53982359
AliasChr11_53982359
dbSNP IDN/A
TypeSNP
SNP AllelesA/T
5' Flanking SequenceTCCCGTTTTTATGGAAGATAAGGAAGATTTTCAACATGGGATCGGAGAAAAACTTGAAGA AATCAATCGAAATCGTTCACGAATTCGCCGATAACATCAT
3' Flanking SequenceAAAACACGATTACAATCCAAAGACCAAAGCAAAGACGAAGATTTACTATCCAGGTTCATT ACAAGCTACGACAATTCACCTCAGTTTCTCCGAGATATAA
SpeciesGossypium hirsutum
GermplasmSiokra 1-4
MCU-5 (PI 694627)
Source Typerestriction-site associated DNA
RNA-seq and restriction-site associated DNA
Restriction EnzymeEcoRI; ApekI; SbfI
Publication[view all]
ContactZhu, Qian-Hao
Wilson, Iain
CommentData obtained 2014. SNP location is based on D5 JGI 221 position
Contact
NameDetails
Zhu, Qian-Hao
First name:Qian-Hao
Last name:Zhu
Title:Research Scientist
Institution:CSIRO
Address:CSIRO Plant Industry, GPO Box 1600, Canberra, ACT 2601,
Country:Australia
Email:Qianhao.Zhu@csiro.au
Phone:61 2 62464903
Last update:24-Aug-2014
Wilson, Iain
Description:SNPs; Disease resistance
First name:Iain
Last name:Wilson
Title:Senior Scientist
Institution:CSIRO
Address:Black Mountain Laboratories Clunies Ross Street, Black Mountain, ACT 2601
Country:Australia
Email:iain.wilson@csiro.au
Phone:+61 (0)2 62465211
Last update:28-Feb-2010
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018224.1chromosomeCM018224.1:56118384..56118584 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018211.1chromosomeCM018211.1:99919229..99919429 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:8795000..8795200 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
CM016623.1chromosomeCM016623.1:130129573..130129773 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr11chromosomeDt_chr11:47985556..47985756 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:55818958..55819158 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A10chromosomeA10:91640720..91640920 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold242746supercontigscaffold242746:23..223 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:58565853..58566053 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A10chromosomeGhir_A10:105357907..105358107 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:58386192..58386392 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A10chromosomeA10:106163238..106163438 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:57123882..57124082 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A10chromosomeA10:105484190..105484390 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:54946282..54946482 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A10chromosomeA10:100609560..100609760 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:56096871..56097071 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A10chromosomeGbar_A10:100249705..100249905 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:57030334..57030534 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A10chromosomeA10:101806101..101806301 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:56079655..56079855 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017619.1chromosomeCM017619.1:101355312..101355512 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:58248323..58248523 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017645.1chromosomeCM017645.1:108604829..108605029 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:57502754..57502954 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017697.1chromosomeCM017697.1:103341437..103341637 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:58665452..58665652 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A10chromosomeA10:108571361..108571561 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:117113593..117113793 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr10chromosomeChr10:53522562..53522762 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr11chromosomeChr11:55371893..55372093 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:45641025..45641225 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr11chromosomeChr11:56616547..56616747 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:40350645..40350845 +Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:30660384..30660584 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:39449879..39450079 +Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:13732190..13732390 -Gossypium stocksii (E1) genome NSF_v1n/a
Chr10chromosomeChr10:12472938..12473138 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Siokra 1-4accession
MCU-5 (PI 694627)accession
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1MCU-5 x Siokra 1-4, RIL (2015 SNP)AD_ch10_At.10N/A157.21Chr11_53982359View
Sequence
>CSIRO_D5chr11_53982359 ID=CSIRO_D5chr11_53982359; Name=CSIRO_D5chr11_53982359; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TCCCGTTTTTATGGAAGATAAGGAAGATTTTCAACATGGGATCGGAGAAA
AACTTGAAGAAATCAATCGAAATCGTTCACGAATTCGCCGATAACATCAT
[A/T]AAAACACGATTACAATCCAAAGACCAAAGCAAAGACGAAGATTTA
CTATCCAGGTTCATTACAAGCTACGACAATTCACCTCAGTTTCTCCGAGA
TATAA