HAU0660, HAU0660 (genetic_marker) gossypium spp

Marker Overview
NameHAU0660
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CCGGTT)7
PCR ConditionAnnealing temperature: 56.8
Primer 1HAU0660_F: TTGAAACATGGGTTGTTTTG
Primer 2HAU0660_R: CACCATGCAAACTCAAATTC
Product Length257
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D08chromosomeD08:364205..364808 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D08chromosomeD08:722170..722755 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018222.1chromosomeCM018222.1:148734..149319 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018209.1chromosomeCM018209.1:116602..117205 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_08chromosomeD5_08:151258..151855 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_08chromosomeKI_08:138567..139161 +Gossypioides kirkii genome ISU_v3n/a
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:176375..176971 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016621.1chromosomeCM016621.1:143391962..143392560 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold699.1supercontigscaffold699.1:153565..154150 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold2118.1supercontigscaffold2118.1:166131..166734 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold2273_A08supercontigscaffold2273_A08:108909..109512 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D08chromosomeD08:199487..200072 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D08chromosomeGhir_D08:199869..200454 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A08chromosomeGhir_A08:181996..182599 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D08chromosomeD08:130175..130760 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A08chromosomeA08:119705..120308 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D08chromosomeD08:153016..153601 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A08chromosomeA08:178033..178636 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D08chromosomeD08:200046..200631 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A08chromosomeA08:159060..159663 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold2761supercontigscaffold2761:364919..365504 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D08chromosomeGbar_D08:135547..136132 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A08chromosomeGbar_A08:129834..130437 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D08chromosomeD08:110941..111526 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
scaffold407-3_obj_A08supercontigscaffold407-3_obj_A08:1434..2036 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017630.1chromosomeCM017630.1:156201..156786 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017617.1chromosomeCM017617.1:149315..149918 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017656.1chromosomeCM017656.1:125426..126011 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017643.1chromosomeCM017643.1:137554..138175 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017708.1chromosomeCM017708.1:137797..138382 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017695.1chromosomeCM017695.1:163978..164581 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D08chromosomeD08:135730..136315 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A08chromosomeA08:171933..172536 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr08chromosomeChr08:152805..153408 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr08chromosomeChr08:171346..171942 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr08chromosomeChr08:135043..135641 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_08chromosomeB_08:155390..155986 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr04chromosomeChr04:139123..139720 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr04chromosomechr04:113985..114582 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_04chromosomeChr_04:105579..106176 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr04chromosomeChr04:191029..191626 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr04chromosomeChr04:111167..111771 +Gossypium aridum (D4) genome ISU_v1n/a
Chr04chromosomeChr04:111359..111961 +Gossypium gossypioides (D6) genome ISU_v1n/a
E08chromosomeE08:129646..130242 +Gossypium stocksii (E1) genome NSF_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch08_At.08N/A123HAU0660View
Sequence
>HAU0660 ID=HAU0660; Name=HAU0660; organism=Gossypium spp.; type=genetic_marker; length=257bp
TTGAAACATGGGTTGTTTTGGTTGCACTGGTCATTCAACCGACGATTCAG
ACTTCCCAAGAAACAAGAACAACAGGAGGAATGCTAACAACAGCAATAAA
AACAAACCCCATGATCAAAGACAAGCCGGTTCCGGTTCCAGTTCCTGTTC
CAGTTCCAGTTCCGTAAAAAAAGCATCAAAAGAGAGTGTAAGGAAGGAAG
AAGCATCTAAGGATGAGGAGTTATTGATGGAGGTAAGGAATTTGAGTTTG
CATGGTG