CIR0081, CIR0081 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0081
AliasCIR81
CIR081
Genbank IDAJ567030
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567030
Source Typegenomic
Repeat Motif(AC)7
PCR ConditionAnnealing temperature: 55
Primer 1CIR081_F: AAAGAACCCATGAGAAGA
Primer 2CIR081_R: GCTGTCTATGTTGGTGG
Product Length225
PolymorphismP_ CIR0081
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567030
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D12chromosomeD12:56952283..56952505 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A12chromosomeA12:95905073..95905296 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018226.1chromosomeCM018226.1:53609781..53610004 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_12chromosomeD5_12:6130952..6131175 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr12_CRI-A2_v1.0.a1chromosomeChr12_CRI-A2_v1.0.a1:6980725..6980950 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_12chromosomeD10_12:48617445..48617670 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016616.1chromosomeCM016616.1:123169800..123170027 +Gossypium australe (G2) genome CRI_v1.1n/a
CM016625.1chromosomeCM016625.1:8753276..8753503 -Gossypium australe (G2) genome CRI_v1.1n/a
CM016619.1chromosomeCM016619.1:7165442..7165671 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr8chromosomeDt_chr8:48723633..48723855 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr8chromosomeDt_chr8:49786317..49786540 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D12chromosomeD12:53457580..53457802 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A12chromosomeA12:81328324..81328547 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D12chromosomeGhir_D12:55877885..55878107 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A12chromosomeGhir_A12:100543430..100543653 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D12chromosomeD12:55193304..55193526 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A12chromosomeA12:100861208..100861431 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D12chromosomeD12:55965837..55966059 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A12chromosomeA12:98695778..98696001 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D12chromosomeD12:54145981..54146203 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A12chromosomeA12:95610441..95610664 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold1283supercontigscaffold1283:154373..154598 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold1283supercontigscaffold1283:155983..156206 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D12chromosomeGbar_D12:52620156..52620379 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D12chromosomeD12:54411731..54411954 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017634.1chromosomeCM017634.1:54272810..54273033 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017660.1chromosomeCM017660.1:57137858..57138081 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017647.1chromosomeCM017647.1:99549339..99549563 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017712.1chromosomeCM017712.1:54929836..54930059 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D12chromosomeD12:56333312..56333534 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A12chromosomeA12:102223536..102223759 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr12chromosomeChr12:103303409..103303635 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr12chromosomeChr12:110291762..110291988 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr12chromosomeChr12:51608873..51609097 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr08chromosomeChr08:51909231..51909454 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_08chromosomeChr_08:38376367..38376592 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr08chromosomeChr08:53538247..53538470 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr08chromosomeChr08:37274571..37274886 +Gossypium aridum (D4) genome ISU_v1n/a
Chr08chromosomeChr08:35696757..35696982 +Gossypium lobatum (D7) genome ISU_v1n/a
E12chromosomeE12:106841729..106841957 +Gossypium stocksii (E1) genome NSF_v1n/a
F12chromosomeF12:85260368..85260590 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:20502250..20502483 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr12chromosomeChr12:164045739..164045965 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr10chromosomeChr10:5727498..5727723 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeChr09:111007696..111007922 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr09chromosomeChr09:111075374..111075600 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr08chromosomeCIR0081:1..289 .
Chr08:51028446..51028737 +		n/a
Chr8chromosomeCIR0081:1..289 .
Chr8:12889158..12889449 -		n/a
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567030AJ567030Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch12_At.12N/A151.3CIR081View
2Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch12_At.12N/A42.9CIR081View
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch12_At.12N/A41.53CIR081View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch12_At.12N/A19.85CIR081View
5TM-1 x 3-79, RIL (2012)AD_ch12_At.12N/A94.94CIR081View
6TM-1 x 3-79, RIL (2014)AD_ch12_At.12N/A94.9CIR081View
7HS-46 x MARCABUCAG8US-1-88, RIL (2009)AD_ch12_At.12N/A80CIR081-220View
8AD-genome wide Reference Map (2009)AD_ch12_At.12N/A58cir0081View
9TM-1 x Hai-7124, BC1 (2007)AD_ch12_At.12N/A75.5CIR081-240View
10TM-1 x Hai-7124, BC1 (2008)AD_ch12_At.12N/A112.28CIR081-240View
11TM-1 x Hai-7124, BC1 (2012)AD_ch12_At.12N/A111.7CIR081-240View
12TM-1 x 3-79, RIL (2012.v3)AD_ch12_At.12N/A94.94CIR081View
Sequence
>CIR0081 ID=CIR0081; Name=CIR0081; organism=Gossypium hirsutum; type=genetic_marker; length=225bp
AAAGAACCCATGAGAAGATAATATTTACATGCTGGAAAAGTAAAGCCAAA
AGATTTTTTTTTTTAAAGGTGAAATTTGTGAAGGCATCAAGTTAGACAAA
AAGACTAGAAAAATCCATCAAAAAGGAAACACACACACACACAGAGTAAA
GCTCAAAAGAGGCATGAAACACATAATATTTACAAAAGGCAAACAACAAT
GACGAAAACCACCAACATAGACAGC