HAU0329, HAU0329 (genetic_marker) gossypium spp

Marker Overview
NameHAU0329
Genbank IDBE054075
TypeSSR
SpeciesGossypium spp.
Source SequenceBE054075
Source TypeEST
Repeat Motif(TC)8
PCR ConditionAnnealing temperature: 57.0
Primer 1HAU0329_F: TGGTGGTGCTTTTGTATGTC
Primer 2HAU0329_R: AAACGGTTTCGCAAAATAAG
Product Length236
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankBE054075
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D04chromosomeD04:47687763..47687989 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A06chromosomeA06:30989652..30989884 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
scaffold_708supercontigscaffold_708:32763..32995 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018218.1chromosomeCM018218.1:45783861..45784087 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:71227772..71228003 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_04chromosomeD5_04:8263594..8263820 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_2_4chromosomeKI_2_4:5260981..5261198 -Gossypioides kirkii genome ISU_v3n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:10373800..10374033 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_04chromosomeD10_04:44642254..44642480 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016617.1chromosomeCM016617.1:113803705..113803933 +Gossypium australe (G2) genome CRI_v1.1n/a
scaffold4517.1supercontigscaffold4517.1:10513..10745 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr12chromosomeDt_chr12:29603113..29603339 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold1006_A04supercontigscaffold1006_A04:14693..14925 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D04chromosomeD04:42705281..42705507 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D04chromosomeGhir_D04:47559200..47559426 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D01chromosomeGhir_D01:63065412..63065604 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:74744113..74744345 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D04chromosomeD04:48529083..48529309 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:77706751..77706983 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D04chromosomeD04:47452653..47452879 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:74879495..74879727 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D04chromosomeD04:45441553..45441779 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:70515198..70515430 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt01chromosomeDt01:62910570..62910762 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold18544supercontigscaffold18544:31985..32177 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold18225supercontigscaffold18225:27326..27552 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold1817supercontigscaffold1817:147092..147318 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D04chromosomeGbar_D04:43875285..43875511 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:71580400..71580630 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D04chromosomeD04:48953727..48953953 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:72169822..72170052 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017626.1chromosomeCM017626.1:46101050..46101276 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017652.1chromosomeCM017652.1:48959752..48959978 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:81778853..81779082 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017704.1chromosomeCM017704.1:46049146..46049372 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:71925452..71925681 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D04chromosomeD04:49247610..49247836 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:78513812..78514044 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:98165496..98165730 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:100079776..100080009 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr04chromosomeChr04:8216579..8216805 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr12chromosomeChr12:45679882..45680110 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr12chromosomechr12:22595016..22595243 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_12chromosomeChr_12:18246058..18246284 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr12chromosomeChr12:45331957..45332184 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr12chromosomeChr12:21431951..21432176 +Gossypium aridum (D4) genome ISU_v1n/a
Chr12chromosomeChr12:16477017..16477294 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr12_6352254chromosomeChr12_6352254:668..894 +Gossypium lobatum (D7) genome ISU_v1n/a
F04chromosomeF04:82036993..82037218 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr04chromosomeChr04:155404907..155405133 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
BE054075BE054075Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
10-153 x sGK9708, RIL (2016)AD_ch04_At.04N/A69.5HAU329View
Sequence
>HAU0329 ID=HAU0329; Name=HAU0329; organism=Gossypium spp.; type=genetic_marker; length=236bp
TGGTGGTGCTTTTGTATGTCATCATCTTGATCCCTTCACTTCCATACTAG
TTTACTTCTTTTTCTTTATTGATTCAGTTCTCTCTCTCTCTCTTTTTTTT
TTTTTTTTTGTACCCATCACCTATACCGTTTTAGATGATGTTTTCGTTTT
CCATCTCTGCAGGCACCCAAGCCATCGTCTGGTCCCCACAAGTCCAGGGA
ATGCTTGCCATTGATCCTTATTTTGCGAAACCGTTT