HAU3069, HAU3069 (genetic_marker) gossypium spp

Marker Overview
NameHAU3069
Genbank IDES829517
TypeSSR
SpeciesGossypium spp.
Source SequenceES829517.1
Source TypeEST
Repeat Motif(ATAC)10
PCR ConditionAnnealing temperature: 55.7
Primer 1HAU3069_F: ACAAGCAGGCCAAGAGAACCA
Primer 2HAU3069_R: AGAAGGCACGTTGCAAGTGTTA
Product Length230
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankES829517
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:4445401..4445630 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A05chromosomeA05:5081295..5081503 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:4114739..4114964 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018206.1chromosomeCM018206.1:5005366..5005575 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:3964351..3964560 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_05chromosomeKI_05:3620742..3620951 -Gossypioides kirkii genome ISU_v3n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:4970694..4970906 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:56524879..56525120 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016626.1chromosomeCM016626.1:7311593..7311805 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr9chromosomeDt_chr9:65110406..65110635 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr9chromosomeAt_chr9:51900185..51900394 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:4275612..4275841 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A05chromosomeA05:4627542..4627750 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:4419256..4419485 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A05chromosomeGhir_A05:5073981..5074189 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:4223355..4223584 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A05chromosomeA05:4923441..4923649 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:4330204..4330433 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A05chromosomeA05:5049422..5049631 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:4207039..4207276 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A05chromosomeA05:5452575..5452784 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt05chromosomeDt05:4378881..4379106 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold390supercontigscaffold390:110606..110815 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold23722supercontigscaffold23722:256236..256461 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:4299141..4299366 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A05chromosomeGbar_A05:4706497..4706706 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:4410179..4410404 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A05chromosomeA05:5189699..5189908 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:4268545..4268762 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017614.1chromosomeCM017614.1:5046504..5046713 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:4502410..4502639 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017640.1chromosomeCM017640.1:5063327..5063536 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:4269990..4270211 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017692.1chromosomeCM017692.1:4982681..4982890 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:4364377..4364606 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A05chromosomeA05:5219749..5219957 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:5318667..5318876 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:4860582..4860794 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:3989475..3989684 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr09chromosomeChr09:4103389..4103598 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:3829426..3829663 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:4229170..4229409 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:4284617..4284862 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr09chromosomeChr09:3887384..3887605 -Gossypium aridum (D4) genome ISU_v1n/a
Chr09chromosomeChr09:3197764..3197993 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr09chromosomeChr09:3798435..3798653 -Gossypium lobatum (D7) genome ISU_v1n/a
F05chromosomeF05:4171297..4171506 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr13chromosomeChr13:193445441..193445656 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
ES829517.1ES829517.1Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch19_Dt.05N/A195.16HAU3069View
2(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch05_At.05N/A40.7HAU3069View
3Yumian-1 x T586, RIL (2015)AD_ch19_Dt.05N/A16.5HAU3069View
4GX1135 x GX100-2, RIL (2015)AD_ch19_Dt.05N/A82.8HAU3069View
5GX1135 x GX100-2, RIL (2016)AD_ch19_Dt.05N/A82.8HAU3069View
6Emian-22 x 3-79, BC1 (2015)AD_ch19_Dt.05N/A206.7HAU3069View
7GX1135 x VGX100-2, RIL (2016)AD_ch19_Dt.05N/A17.5HAU3069View
8CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch19_Dt.05N/A192.7HAU3069View
9CCRI-35 x Yumian-1, RIL (2015)AD_ch19_Dt.05N/A25.5HAU3069View
10LMY28 x XLZ24, RIL (2018)AD_ch05_At.05N/A0HAU3069View
11LMY22 x LY343, RIL (2016)chr.19-2N/A0HAU3069View
12LMY22 x LY343, RIL (2020)D05N/A145.61HAU3069View
13CCRI-35 x Yumian-1, RIL (2017)AD_ch19_Dt.05N/A17.9HAU3069View
14MGG-293-793, MAGIC (2018)AD_ch19_Dt.05N/A206.7HAU3069View
Sequence
>HAU3069 ID=HAU3069; Name=HAU3069; organism=Gossypium spp.; type=genetic_marker; length=230bp
ACAAGCAGGCCAAGAGAACCAATCAATGCTGTACCTTACTGTAACCTTCC
AGAGAAAGCAGATGTGCTATAATGACTTTCATCTGTTCTGGTGACTGAAA
GCTCTAATGGTACCGTAAGAAAAGGGAAATGAAACCAAAACATTCAAAAG
GATGATTTTCATATACATACATACATACATACATACATACATACATACAT
ACATTATATAACACTTGCAACGTGCCTTCT