HAU0654, HAU0654 (genetic_marker) gossypium spp

Marker Overview
NameHAU0654
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CAT)7
PCR ConditionAnnealing temperature: 56.9
Primer 1HAU0654_F: CAGTATCCACCACCTCTTCC
Primer 2HAU0654_R: GGAGGAGACCAGAGATGAAA
Product Length145
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D07chromosomeD07:56211953..56212097 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A07chromosomeA07:91867706..91867850 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018221.1chromosomeCM018221.1:54111513..54111657 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018208.1chromosomeCM018208.1:91881522..91881666 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:49553687..49553831 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:476674..476812 +Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:95349633..95349783 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:998617..998764 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:3189402..3189543 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr1chromosomeDt_chr1:85837284..85837428 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr9chromosomeAt_chr9:47457117..47457261 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:53327986..53328130 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:76347931..76348075 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:57289002..57289146 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:95786141..95786284 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:56543369..56543513 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:94734563..94734707 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:56920490..56920634 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:94798815..94798959 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:53246465..53246609 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:91311422..91311566 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt07chromosomeDt07:58846634..58846778 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold8364supercontigscaffold8364:171257..171401 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold8554supercontigscaffold8554:328781..328925 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D07chromosomeGbar_D07:54501591..54501735 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A07chromosomeGbar_A07:90819524..90819668 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:55078160..55078304 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A07chromosomeA07:93133999..93134143 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:55071515..55071659 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:94835421..94835565 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:56077847..56077991 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:97800519..97800663 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:55153506..55153650 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017694.1chromosomeCM017694.1:93165274..93165418 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:57508410..57508554 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:96980394..96980538 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:98681366..98681510 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:100003719..100003869 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:1920323..1920467 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:82161853..82162012 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:53980485..53980635 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:43781434..43781590 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:38704432..38704582 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:53847133..53847280 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:40802353..40802494 +Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:31760607..31760748 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:39380610..39380751 +Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:539877..540021 +Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:80460449..80460593 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:155487641..155487782 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Sequence
>HAU0654 ID=HAU0654; Name=HAU0654; organism=Gossypium spp.; type=genetic_marker; length=145bp
CAGTATCCACCACCTCTTCCTCCATCATCATCTTCATCATCATCTTCAAG
CCCTTCACCATCATCTTCTGGTACTAAAATTAGTCCTGCTGTTCTTTTCA
TTATAGTAATTTTAGCTGTTCTATTTTTCATCTCTGGTCTCCTCC