UCD_Gh_M_000611, UCD_Gh_M_000611 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000611
AliasGh_M_000611
Tm1_Mira454_Contig_2771_839
dbSNP IDN/A
TypeSNP
SNP AllelesA/C
5' Flanking SequenceCCAAGGTGATAACCTTGGGAGAAAGTGACCTTACCATTCGCAGAATCCCGTCCCTGGGAT TGTTCACATCTACACTCTCGTCGGGGGTGTGATGGAGCTG
3' Flanking SequenceAGCGGAAAGTTGACAGCAAGAGCCTCCCCAGGCTTGACATCAAGCATGTCCCTTGTGATA TCTGCTGCAAAAACTGGCATTCCATGGAACTCAACTGGAA
SpeciesGossypium hirsutum
GermplasmAcala Maxxa
PD-1
Sealand 542
Fibermax 832
TM-1
Source TypeRNA
Publication[view all]
ContactAshrafi, Hamid
Contact
NameDetails
Ashrafi, Hamid
First name:Hamid
Last name:Ashrafi
Title:Bioinformatics Specialist
Institution:University of California
Address:1 Shields Ave, Davis, CA 95616
Country:United States
Email:ashrafi@ucdavis.edu
Last update:24-Aug-2014
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
CM018219.1chromosomeCM018219.1:59411902..59412102 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018205.1chromosomeCM018205.1:3753126..3753326 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:53120005..53120205 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:92915844..92916044 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_05chromosomeD10_05:6544062..6544262 +Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016618.1chromosomeCM016618.1:4556495..4556695 -Gossypium australe (G2) genome CRI_v1.1n/a
scaffold2595.1supercontigscaffold2595.1:165290..165490 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
Dt_chr9chromosomeDt_chr9:3221286..3221486 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:58005682..58005882 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A04chromosomeA04:3726232..3726432 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:59358391..59358591 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A04chromosomeGhir_A04:4248025..4248225 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:60093120..60093320 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:3544429..3544629 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D05chromosomeD05:60030032..60030232 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:3679646..3679846 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D05chromosomeD05:58752865..58753065 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A04chromosomeA04:3407685..3407885 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D05chromosomeGbar_D05:60736192..60736392 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A04chromosomeGbar_A04:3989431..3989631 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:62206883..62207083 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A04chromosomeA04:3785169..3785369 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017627.1chromosomeCM017627.1:59024473..59024673 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017613.1chromosomeCM017613.1:3523153..3523353 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017653.1chromosomeCM017653.1:61556611..61556811 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017639.1chromosomeCM017639.1:4359788..4359988 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017705.1chromosomeCM017705.1:60261268..60261468 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017691.1chromosomeCM017691.1:3838037..3838237 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:62451501..62451701 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A04chromosomeA04:3690339..3690539 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:89986667..89986867 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr05chromosomeChr05:93615554..93615754 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr05chromosomeChr05:54328645..54328845 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_05chromosomeB_05:8131218..8131418 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr09chromosomeChr09:54429704..54429904 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr09chromosomechr09:51603367..51603567 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_09chromosomeChr_09:49630280..49630480 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr09chromosomeChr09:40237901..40238101 -Gossypium gossypioides (D6) genome ISU_v1n/a
Chr05chromosomeChr05:14294819..14295019 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000611 ID=UCD_Gh_M_000611; Name=UCD_Gh_M_000611; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
CCAAGGTGATAACCTTGGGAGAAAGTGACCTTACCATTCGCAGAATCCCG
TCCCTGGGATTGTTCACATCTACACTCTCGTCGGGGGTGTGATGGAGCTG
[A/C]AGCGGAAAGTTGACAGCAAGAGCCTCCCCAGGCTTGACATCAAGC
ATGTCCCTTGTGATATCTGCTGCAAAAACTGGCATTCCATGGAACTCAAC
TGGAA