HAU0971, HAU0971 (genetic_marker) gossypium spp

Marker Overview
NameHAU0971
AliasTA22929_3635
Genbank IDN/A
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CT)10
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0971_F: TGCCCTCCTTATTCTATTCG
Primer 2HAU0971_R: TCCATCTTCAACACAGTTGG
Product Length141
Publication[view all]
CommentPrimer data obtained in 2012
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D04chromosomeD04:49446282..49446420 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A04chromosomeA04:75054127..75054264 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018218.1chromosomeCM018218.1:47434695..47434836 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:73661613..73661746 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:6508982..6509127 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_2_4chromosomeKI_2_4:4539737..4539912 +Gossypioides kirkii genome ISU_v3n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:7489009..7489142 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016617.1chromosomeCM016617.1:117723735..117723874 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr12chromosomeDt_chr12:8141017..8141152 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold159123supercontigscaffold159123:160..297 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D04chromosomeD04:44499898..44500035 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A04chromosomeA04:56179017..56179154 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:49246937..49247076 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:77214400..77214537 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:50187876..50188015 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:80082165..80082302 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:49140423..49140562 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:77354559..77354698 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:47130818..47130959 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:72974600..72974739 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt04chromosomeDt04:45705448..45705589 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At04chromosomeAt04:58103120..58103253 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold6354supercontigscaffold6354:81982..82115 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold12215supercontigscaffold12215:73..214 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D04chromosomeGbar_D04:45535373..45535514 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:74013844..74013977 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D04chromosomeD04:50585667..50585929 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:74565338..74565477 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:47689499..47689641 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017613.1chromosomeCM017613.1:76083404..76083537 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017652.1chromosomeCM017652.1:50612029..50612246 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:84375612..84375745 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017704.1chromosomeCM017704.1:47736078..47736253 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:74378558..74378696 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:51011140..51011278 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:80994222..80994359 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:100839975..100840108 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:102667953..102668086 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:6466160..6466301 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_02chromosomeB_02:8033965..8034104 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr12chromosomeChr12:47515697..47515837 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr12chromosomeChr12:47195990..47196135 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr12chromosomeChr12:17598508..17598654 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr12chromosomeChr12:21443676..21443877 -Gossypium lobatum (D7) genome ISU_v1n/a
F04chromosomeF04:84218485..84218638 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr04chromosomeChr04:162498427..162498558 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1DH962 X Ji Mian 5, F2 (2015)AD_ch04_At.04N/A15.54HAU0971View
2DH962 x Ji Mian 5, RIL (2015)AD_ch04_At.04N/A16.4HAU0971View
3CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch04_At.04N/A53HAU0971View
Sequence
>HAU0971 ID=HAU0971; Name=HAU0971; organism=Gossypium spp.; type=genetic_marker; length=141bp
TGCCCTCCTTATTCTATTCGCCTCTTAAGAACCCCCCCCCCCACCATTAC
CCTTCTATAAAGACGCCACACTTTTCCCTCTCAATTACCCACCACCCTCT
CTCTCTCTCTCTCTCATATCACCAACTGTGTTGAAGATGGA