HAU3369, HAU3369 (genetic_marker) gossypium spp

Marker Overview
NameHAU3369
Genbank IDGR716890
TypeSSR
SpeciesGossypium spp.
Source SequenceGR715031.1
Source TypeEST
Repeat Motif(CATC)4
PCR ConditionAnnealing temperature: 57.1
Primer 1HAU3369_F: CCGGCACCAAGCGTGTAGAA
Primer 2HAU3369_R: GCGGTTTTGGCAGCATGGTT
Product Length350
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankGR716890
Alignments
The following features are aligned
Feature Name Type LocationAnalysis
D08chromosomeD08:64978661..64979015 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
A08chromosomeA08:119198689..119199038 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1
CM018222.1chromosomeCM018222.1:61215266..61215621 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
CM018209.1chromosomeCM018209.1:114197599..114197948 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1
D5_08chromosomeD5_08:57363093..57363448 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1
KI_08chromosomeKI_08:36083579..36083883 +Gossypioides kirkii genome ISU_v3
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:124228719..124229068 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1
D10_08chromosomeD10_08:4067019..4067330 -Gossypium turneri (D10) genome NSF_v1_a2
CM016621.1chromosomeCM016621.1:6236948..6237299 -Gossypium australe (G2) genome CRI_v1.1
Dt_chr12chromosomeDt_chr12:10575539..10575893 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
At_chr1chromosomeAt_chr1:52418277..52418626 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1
D08chromosomeD08:61760096..61760450 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1
A08chromosomeA08:99289023..99289372 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1
Ghir_D08chromosomeGhir_D08:64163796..64164150 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
Ghir_A08chromosomeGhir_A08:117713208..117713556 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1
D08chromosomeD08:64583742..64584096 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
A08chromosomeA08:120378744..120379093 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1
A08chromosomeA08:120550384..120550733 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1
D08chromosomeD08:61294267..61294622 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
A08chromosomeA08:116286274..116286623 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1
Dt08chromosomeDt08:64141205..64141560 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
Dt08chromosomeDt08:64142801..64143156 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold7169supercontigscaffold7169:19576..19925 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold17120supercontigscaffold17120:127091..127446 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
scaffold17120supercontigscaffold17120:128687..129042 +Gossypium barbadense (AD2) '3-79' genome HAU_v1
Gbar_D08chromosomeGbar_D08:61330264..61330619 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
Gbar_A08chromosomeGbar_A08:114862703..114863052 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1
D08chromosomeD08:63145222..63145577 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
A08chromosomeA08:115855282..115855631 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1
CM017630.1chromosomeCM017630.1:62918129..62918484 +Gossypium tomentosum (AD3) genome HGS_v1.1
CM017617.1chromosomeCM017617.1:114453352..114453701 +Gossypium tomentosum (AD3) genome HGS_v1.1
CM017656.1chromosomeCM017656.1:65069762..65070117 +Gossypium mustelinum (AD4) genome JGI_v1.1
CM017643.1chromosomeCM017643.1:123958603..123958952 +Gossypium mustelinum (AD4) genome JGI_v1.1
CM017708.1chromosomeCM017708.1:61640844..61641199 +Gossypium darwinii (AD5) genome HGS_v1.1
CM017695.1chromosomeCM017695.1:115050336..115050685 +Gossypium darwinii (AD5) genome HGS_v1.1
D08chromosomeD08:64786380..64786734 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
A08chromosomeA08:122428270..122428619 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1
Chr08chromosomeChr08:126737181..126737530 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1
Chr08chromosomeChr08:127680012..127680361 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1
Chr08chromosomeChr08:58275715..58276070 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1
B_08chromosomeB_08:99274107..99274458 +Gossypium anomalum (B1) genome NSF_v1
Chr04chromosomeChr04:59709519..59709874 +Gossypium thurberi (D1-5) genome CRI_v1
chr04chromosomechr04:45122870..45123181 +Gossypium armourianum (D2-1) genome ISU_v1
Chr04chromosomeChr04:62155690..62156046 +Gossypium davidsonii (D3d-8) genome CRI_v1
Chr04chromosomeChr04:39458046..39458401 +Gossypium aridum (D4) genome ISU_v1
Chr04_3460830chromosomeChr04_3460830:5470..5818 +Gossypium gossypioides (D6) genome ISU_v1
Chr04chromosomeChr04:40457829..40458184 +Gossypium lobatum (D7) genome ISU_v1
F08chromosomeF08:100450869..100451227 +Gossypium longicalyx (F1) genome NSF_v1
Chr08chromosomeChr08:6416318..6416670 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1
Relationships

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

Feature NameUnique NameSpeciesType
GR715031.1GR715031.1Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch24_Dt.08N/A92HAU3369View
2CCRI-35 x Yumian-1, RIL (2015)AD_ch24_Dt.08N/A48.2HAU3369View
3CCRI-35 x Yumian-1, RIL (2017)AD_ch24_Dt.08N/A99.28HAU3369View
Sequence
>HAU3369 ID=HAU3369; Name=HAU3369; organism=Gossypium spp.; type=genetic_marker; length=350bp
CCGGCACCAAGCGTGTAGAAGGAATAGTTTCGTTGAGTGATGTCTTTAGG
TTCTTGCTTGGTGTTTAGCTCAAAAAACCCTAGGGTCACTACATTGGACA
TCGTGGAATATCCATTAATGCCATCTACTTTGGTTTTCCTCATCCATCCA
TCCATCTTTCCTATGGTGTCTTCTTATCTGTTACTCTTTACAGTCTTTTG
ATTGGCAGGGCTTCTTCACTCTGAGCCCAATCCTTTTTTTTCTTTCTTCT
TTAGGATAGAAAGTTTCAAAAAGCAAGAAGTAAAATTGTAAATTGTGAGA
AGTCAAAAATTTTCCCTTTCATTTTAACTCAACCATGCTGCCAAAACCGC