NBRI_gC004, NBRI_gC004 (genetic_marker) Gossypium herbaceum

Marker Overview
NameNBRI_gC004
Genbank IDHQ524360
TypeSSR
SpeciesGossypium herbaceum
GermplasmVagad
Source Typegenomic
Repeat Motif(TTC)8
PCR ConditionAnnealing temperature: 52
Primer 1NBRI_gC004_F: GCTCTTCTTGCTGATCTTACTG
Primer 2NBRI_gC004_R: CAAGCACTAGAGGCACAATC
Product Length261
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankHQ524360
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D06chromosomeD06:3183285..3183537 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018220.1chromosomeCM018220.1:2866215..2866469 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018207.1chromosomeCM018207.1:3165207..3165469 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_06chromosomeD5_06:2655790..2656044 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_06chromosomeKI_06:2438837..2439091 +Gossypioides kirkii genome ISU_v3n/a
Chr06_CRI-A2_v1.0.a1chromosomeChr06_CRI-A2_v1.0.a1:2734634..2734905 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_06chromosomeD10_06:57294542..57294790 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016619.1chromosomeCM016619.1:142122834..142123082 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold6507.1supercontigscaffold6507.1:637..890 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold445.1supercontigscaffold445.1:1036999..1037251 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold4091_D06supercontigscaffold4091_D06:152553..152806 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A06chromosomeA06:2713539..2713791 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D06chromosomeGhir_D06:3148216..3148469 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A06chromosomeGhir_A06:3244412..3244664 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D06chromosomeD06:2996965..2997218 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A06chromosomeA06:3074344..3074596 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D06chromosomeD06:3127904..3128157 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A06chromosomeA06:3160278..3160530 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D06chromosomeD06:3008876..3009129 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A06chromosomeA06:3120127..3120379 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At06chromosomeAt06:2666010..2666272 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At06chromosomeAt06:2667214..2667467 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At06chromosomeAt06:2675907..2676160 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3569supercontigscaffold3569:51048..51310 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3569supercontigscaffold3569:52252..52505 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3569supercontigscaffold3569:60945..61198 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold17240supercontigscaffold17240:48825..49079 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D06chromosomeGbar_D06:2952130..2952384 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A06chromosomeGbar_A06:3052444..3052706 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D06chromosomeD06:2934343..2934597 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A06chromosomeA06:3119478..3119740 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017628.1chromosomeCM017628.1:2968329..2968580 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017615.1chromosomeCM017615.1:3093691..3093953 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017654.1chromosomeCM017654.1:3135558..3135809 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017641.1chromosomeCM017641.1:3328640..3328892 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017706.1chromosomeCM017706.1:2969619..2969873 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017693.1chromosomeCM017693.1:3229943..3230205 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D06chromosomeD06:3219301..3219554 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A06chromosomeA06:3226861..3227113 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr06chromosomeChr06:3173067..3173327 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr06chromosomeChr06:3213623..3213894 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr06chromosomeChr06:2672286..2672540 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_06chromosomeB_06:94338604..94338866 -Gossypium anomalum (B1) genome NSF_v1n/a
Chr10chromosomeChr10:2816153..2816397 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr10chromosomechr10:2823957..2824211 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_10chromosomeChr_10:2281499..2281746 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr10chromosomeChr10:2852032..2852281 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr10chromosomeChr10:2014703..2014957 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr10chromosomeChr10:2486878..2487123 +Gossypium lobatum (D7) genome ISU_v1n/a
E06chromosomeE06:113702160..113702411 -Gossypium stocksii (E1) genome NSF_v1n/a
F06chromosomeF06:2480756..2481009 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr06chromosomeChr06:199723294..199723544 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr10chromosomeNBRI_gC004:12..424 .
Chr10:2632856..2633259 +		n/a
Chr10chromosomeNBRI_gC004:12..424 .
Chr10:2708834..2709237 +		n/a
Germplasm
Stock NameType
Vagadaccession
Sequence
>NBRI_gC004 ID=NBRI_gC004; Name=NBRI_gC004; organism=Gossypium herbaceum; type=genetic_marker; length=261bp
GCTCTTCTTGCTGATCTTACTGGTNAGTTCTTCTTCTTCTTCTTCTTCTT
CTTTTTTTCGATTTTTTTTTTGTTGGAATTAAATAAATTTAGAGCTTAAT
TAGCATTTATTTAATATAAAAATTATGATAATTTCGTTTTCTATGACATC
TTTTTAAAGAGTAAAGCAAAGTAGTCATTACTCATCATGGAATATAAAAT
TATTTTTACGTTTGATTATTGGTATTACTTTATTTTTCAATGATTGTGCC
TCTAGTGCTTG