CIR0339, CIR0339 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0339
AliasCIR339
Genbank IDAJ567276
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567276
Source Typegenomic
Repeat Motif(GT)7
PCR ConditionAnnealing temperature: 51
Primer 1CIR339_F: TCCCAAATACCTTTTCC
Primer 2CIR339_R: CTTTATACCAAAACACAACC
Product Length128
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567276
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D01chromosomeD01:42297304..42297431 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A01chromosomeA01:63948975..63949101 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018215.1chromosomeCM018215.1:41468687..41468814 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018202.1chromosomeCM018202.1:70245489..70245615 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_01chromosomeD5_01:36583846..36583970 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_01chromosomeKI_01:27544235..27544356 -Gossypioides kirkii genome ISU_v3n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:75288688..75288818 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_01chromosomeD10_01:21122668..21122796 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016614.1chromosomeCM016614.1:78707231..78707355 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr2chromosomeDt_chr2:21924410..21924537 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr13chromosomeDt_chr13:4749970..4750096 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D01chromosomeD01:39533151..39533278 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold4800supercontigscaffold4800:62420..62546 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
scaffold153589supercontigscaffold153589:24..151 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D01chromosomeGhir_D01:41194169..41194296 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:74084166..74084292 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D01chromosomeD01:43129087..43129214 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A01chromosomeA01:74495447..74495573 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D01chromosomeD01:42587900..42588027 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A01chromosomeA01:73340949..73341075 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D01chromosomeD01:40092861..40092988 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A01chromosomeA01:70373389..70373515 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt01chromosomeDt01:40049238..40049365 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold1101supercontigscaffold1101:696721..696848 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold10861supercontigscaffold10861:19700..19826 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D01chromosomeGbar_D01:41665552..41665679 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:72318621..72318747 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D01chromosomeD01:42477778..42477905 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A01chromosomeA01:72309431..72309557 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017623.1chromosomeCM017623.1:42438244..42438371 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017610.1chromosomeCM017610.1:70947334..70947460 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017649.1chromosomeCM017649.1:43385175..43385302 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017636.1chromosomeCM017636.1:76809473..76809599 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017701.1chromosomeCM017701.1:41832949..41833076 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017688.1chromosomeCM017688.1:69223394..69223520 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D01chromosomeD01:43007044..43007171 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A01chromosomeA01:75415499..75415625 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:76010957..76011085 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr01chromosomeChr01:78547170..78547300 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr01chromosomeChr01:32112613..32112737 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_01chromosomeB_01:63011129..63011253 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr02chromosomeChr02:40374002..40374128 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr02chromosomechr02:31070390..31070516 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_02chromosomeChr_02:28132327..28132455 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr02chromosomeChr02:40613229..40613353 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr02chromosomeChr02:30903568..30903702 -Gossypium aridum (D4) genome ISU_v1n/a
Chr02chromosomeChr02:23780167..23780293 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr02chromosomeChr02:29508598..29508728 -Gossypium lobatum (D7) genome ISU_v1n/a
E01chromosomeE01:69613271..69613397 +Gossypium stocksii (E1) genome NSF_v1n/a
F01chromosomeF01:53070605..53070731 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr01chromosomeChr01:79331152..79331280 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr02chromosomeCIR0339:1..194 .
Chr02:42469545..42469738 -		n/a
Chr8chromosomeCIR0339:1..194 .
Chr8:16368620..16368813 +		n/a
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567276AJ567276Gossypium hirsutumsequence_feature


Sequence
>CIR0339 ID=CIR0339; Name=CIR0339; organism=Gossypium hirsutum; type=genetic_marker; length=128bp
TCCCAAATACCTTTTCCAATTCTCAGTTTTTAACTATGGAACTAACTGTT
CTATATTCATCAGTGTGTGTGTGTGTTTGCATATCATTCTATGATACTTT
CTTCTAATGGTTGTGTTTTGGTATAAAG