SHIN-0316, SHIN-0316 (genetic_marker) Gossypium hirsutum

Marker Overview
NameSHIN-0316
Genbank IDAI726568
TypeSSR
SpeciesGossypium hirsutum
GermplasmAcala Maxxa
Source SequenceAI726568.1
Source TypeEST
Primer 1SHIN-0316_F: TTGAATCTAGGGATTTGCGG
Primer 2SHIN-0316_R: TGGCGACTGAACAACAAAGA
Publication[view all]
ContactMonsanto
CommentPrimer data obtained in 2009-05
Contact
NameDetails
Monsanto
Country:United States
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAI726568
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D02chromosomeD02:201503..201714 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A02chromosomeA02:155469..155674 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018216.1chromosomeCM018216.1:180097..180308 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018203.1chromosomeCM018203.1:144296..144501 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_03chromosomeD5_03:62853683..62853900 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_03chromosomeKI_03:157949..158154 -Gossypioides kirkii genome ISU_v3n/a
Chr03_CRI-A2_v1.0.a1chromosomeChr03_CRI-A2_v1.0.a1:153405..153608 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_03chromosomeD10_03:61251411..61251623 -Gossypium turneri (D10) genome NSF_v1_a2n/a
At_chr1chromosomeAt_chr1:106787053..106787264 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
scaffold1428.1supercontigscaffold1428.1:159813..160018 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D02chromosomeD02:192000..192211 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A02chromosomeA02:146046..146251 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A02chromosomeGhir_A02:173934..174139 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D02chromosomeGhir_D02:194218..194429 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A02chromosomeGhir_A02:179382..179587 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D02chromosomeD02:191942..192153 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A02chromosomeA02:196344..196549 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D02chromosomeD02:193097..193308 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A02chromosomeA02:167511..167716 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D02chromosomeD02:192880..193091 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A02chromosomeA02:170878..171083 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold46912supercontigscaffold46912:1484..1695 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold26500supercontigscaffold26500:36153..36364 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold26500supercontigscaffold26500:44019..44224 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D02chromosomeGbar_D02:187792..188001 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A02chromosomeGbar_A02:76728..76933 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D02chromosomeD02:184755..184966 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A02chromosomeA02:128097..128302 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017624.1chromosomeCM017624.1:185169..185380 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017611.1chromosomeCM017611.1:171384..171589 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017650.1chromosomeCM017650.1:198300..198513 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017637.1chromosomeCM017637.1:158664..158869 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017689.1chromosomeCM017689.1:146360..146565 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D02chromosomeD02:213039..213250 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A02chromosomeA02:166321..166526 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr03chromosomeChr03:132512951..132513156 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr03chromosomeChr03:130723750..130723953 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr03chromosomeChr03:177084..177301 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_03chromosomeB_03:106921881..106922085 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr05chromosomeChr05:162936..163145 -Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_05chromosomeChr_05:149207..149416 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr05chromosomeChr05:166484..166702 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr05chromosomeChr05:154134..154349 -Gossypium aridum (D4) genome ISU_v1n/a
Chr05chromosomeChr05:139002..139208 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr05chromosomeChr05:206347..206560 -Gossypium lobatum (D7) genome ISU_v1n/a
E03chromosomeE03:125591..125795 -Gossypium stocksii (E1) genome NSF_v1n/a
F03chromosomeF03:223546..223763 -Gossypium longicalyx (F1) genome NSF_v1n/a
Chr03chromosomeChr03:205539291..205539504 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
Relationships

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

Feature NameUnique NameSpeciesType
AI726568.1AI726568.1Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1W10 x TM-1, F2:3 (2015)AD_ch02_At.02N/A47.1SHIN-0316View
Sequence
>SHIN-0316 ID=SHIN-0316; Name=SHIN-0316; organism=Gossypium hirsutum; type=genetic_marker; length=212bp
TTGAATCTAGGGATTTGCGGGTGGAGAAGACGAGAGCTCATCTCTCTGCT
TCAAAGTTTGTTCCTTTATTCCTTTCAAACCCTTTCCTTTTTTTAACTTG
ATTTCATTTTCTCAGATTTGTTCTTTTTCTCTCTCTCTCTCTCTCTCCAG
GCTCCTGTCCAGGTAGAATTCTCTTCTTCCTTTGCGTTGTGTTCTTTGTT
GTTCAGTCGCCA