HAU0409, HAU0409 (genetic_marker) gossypium spp

Marker Overview
NameHAU0409
Genbank IDBG440752
TypeSSR
SpeciesGossypium spp.
Source SequenceBG440752
Source TypeEST
Repeat Motif(GCCT)5
PCR ConditionAnnealing temperature: 56.7
Primer 1HAU0409_F: AATTTGCAGACGACAATCTG
Primer 2HAU0409_R: GGGCAGACGAGATCTTCTAA
Product Length281
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankBG440752
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A07chromosomeA07:55852437..55853037 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A01chromosomeA01:47915622..47916445 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018208.1chromosomeCM018208.1:61894375..61894975 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018202.1chromosomeCM018202.1:45733434..45734257 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:74220832..74221432 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
Chr01_CRI-A2_v1.0.a1chromosomeChr01_CRI-A2_v1.0.a1:48768722..48769561 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
scaffold1126.1supercontigscaffold1126.1:318783..319606 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr8chromosomeAt_chr8:24785186..24785786 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A07chromosomeA07:50154404..50155004 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A01chromosomeA01:46016601..46017424 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A07chromosomeGhir_A07:64462691..64463291 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A01chromosomeGhir_A01:49085312..49086135 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A07chromosomeA07:63691217..63691817 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A01chromosomeA01:48156173..48156996 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:64610303..64610903 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A01chromosomeA01:47942199..47943022 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:62866570..62867170 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A01chromosomeA01:47180432..47181255 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At07chromosomeAt07:55504195..55504795 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13136supercontigscaffold13136:7844..8667 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold469supercontigscaffold469:207312..207912 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A07chromosomeGbar_A07:61063813..61064413 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A01chromosomeGbar_A01:46026082..46026905 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A07chromosomeA07:62764432..62765032 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A01chromosomeA01:46444156..46444979 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017616.1chromosomeCM017616.1:64180309..64180909 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017610.1chromosomeCM017610.1:43940002..43940831 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017642.1chromosomeCM017642.1:65481671..65482271 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017636.1chromosomeCM017636.1:50222727..50223566 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017694.1chromosomeCM017694.1:62813065..62813665 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017688.1chromosomeCM017688.1:46252432..46253261 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A07chromosomeA07:65565153..65565753 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A01chromosomeA01:49463047..49463870 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr01chromosomeChr01:51081708..51082547 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:71980558..71981158 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:77605027..77605627 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr01chromosomeChr01:48623358..48624197 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
BG440752BG440752Gossypium spp.sequence_feature


Sequence
>HAU0409 ID=HAU0409; Name=HAU0409; organism=Gossypium spp.; type=genetic_marker; length=281bp
AATTTGCAGACGACAATCTGCAATGGTCCCAAATGAATAAGCCTGCCTGC
CTGCCTGCAGATGGTGCACCCTCAACACTTGTATTTAACGCTTATTAAGA
GAGTAAGATGGCATCCTCTTTCATAGCCATGTCATAAGTTGGCTCATTCG
TGGCACCTAATGGTCTGGTCATGGATAAGAAGCTTTCATCATCTTCCAAT
AGATTGTCATCTTTAGCTTCCATTTATTCTTTTTCATTTCTTAGTAGACG
AAATGTTGTTCTTAGAAGATCTCGTCTGCCC