UCcg10565_38, UCcg10565_38 (genetic_marker) gossypium spp

Marker Overview
NameUCD_cg10565_38
AliasUCcg10565_38
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceACTAGCTAAGCAGGGGTACACTGAGATTTA
3' Flanking SequenceTTGTGGTTTTGGTGTTATATATATGCTGCT
SpeciesGossypium spp.
Source TypeEST 5' end
Primer 1cg10565_F: GGCACTGGCAATGGTCTACT
Primer 2cg10565_R: CAACCAACTTCGAGACCGAG
Primer 3cg10565_F: GGCACTGGCAATGGTCTACT
Primer 4cg10565_R: CAACCAACTTCGAGACCGAG
Publication[view all]
ContactVan Deynze, Allen
CommentPrimer data obtained in 2010
Contact
NameDetails
Van Deynze, Allen
Description:Deployment of moloecular markers in breding and breeding systems. ; Gene Flow and transgenics
First name:Allen
Last name:Van Deynze
Title:Biotechnology Specialist
Institution:University of California
Address:1 Shields Ave, Davis, CA 95616
Country:United States
Email:avandeynze@ucdavis.edu
Phone:530-754-6444
Last update:20-Feb-2007
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018221.1chromosomeCM018221.1:9088242..9088302 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_07chromosomeD5_07:9100072..9100132 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_07chromosomeKI_07:31104151..31104211 -Gossypioides kirkii genome ISU_v3n/a
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:11183822..11183882 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_07chromosomeD10_07:44972506..44972566 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016620.1chromosomeCM016620.1:101610346..101610406 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr12chromosomeDt_chr12:18987208..18987268 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr1chromosomeDt_chr1:44669327..44669387 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D07chromosomeD07:9240382..9240442 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A07chromosomeA07:9911597..9911657 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D07chromosomeGhir_D07:9489562..9489622 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A07chromosomeGhir_A07:10856584..10856644 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D07chromosomeD07:9081668..9081728 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A07chromosomeA07:10321506..10321566 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D07chromosomeD07:9426547..9426607 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A07chromosomeA07:10822285..10822345 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D07chromosomeD07:9316856..9316916 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A07chromosomeA07:10904030..10904090 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D07chromosomeGbar_D07:9492848..9492908 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D07chromosomeD07:9268009..9268069 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017629.1chromosomeCM017629.1:9582640..9582700 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017616.1chromosomeCM017616.1:10733328..10733388 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017655.1chromosomeCM017655.1:9632521..9632581 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017642.1chromosomeCM017642.1:10924065..10924125 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017707.1chromosomeCM017707.1:9423476..9423536 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D07chromosomeD07:9587224..9587284 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A07chromosomeA07:10932130..10932190 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr07chromosomeChr07:11244845..11244907 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr07chromosomeChr07:11257561..11257621 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr07chromosomeChr07:44481935..44481995 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_07chromosomeB_07:11044240..11044300 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr01chromosomeChr01:9291433..9291493 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr01chromosomechr01:8369147..8369207 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_01chromosomeChr_01:8423804..8423864 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr01chromosomeChr01:9198350..9198410 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr01chromosomeChr01:7596366..7596425 +Gossypium aridum (D4) genome ISU_v1n/a
Chr01chromosomeChr01:6361224..6361284 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr01chromosomeChr01:7790741..7790801 +Gossypium lobatum (D7) genome ISU_v1n/a
E07chromosomeE07:80609460..80609520 -Gossypium stocksii (E1) genome NSF_v1n/a
F07chromosomeF07:10139070..10139130 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr07chromosomeChr07:17155467..17155527 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr01chromosomeUCD_cg10565_38:1..61 .
Chr01:9007342..9007402 +		n/a
Sequence
>UCD_cg10565_38 ID=UCD_cg10565_38; Name=UCD_cg10565_38; organism=Gossypium spp.; type=genetic_marker; length=65bp
ACTAGCTAAGCAGGGGTACACTGAGATTTA[A/G]TTGTGGTTTTGGTGT
TATATATATGCTGCT