UCD_Gh_M_000043, UCD_Gh_M_000043 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000043
AliasGh_M_000043
Tm1_Mira454_Contig_1440_202
dbSNP IDN/A
TypeSNP
SNP AllelesT/C
5' Flanking SequenceGCTTGCAACAGCGCCACGTCCACCTCCTCTGCTTCTTCCATCTAAAGCCATCAACCATCC CAAACCCTCCTTCATTTGACCCCCACAGTCGCATCCTCAA
3' Flanking SequenceTCTTTGAAACAATGTACCCACATCTCTCAGCTCAAACAAATCCACGCCCTGACCCTTCGT TCCACTTCACCGTACCATCCAAAAACCTTCTTTTTATACT
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
CM018205.1chromosomeCM018205.1:71832437..71832636 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:9731783..9731982 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_04chromosomeD10_04:45044460..45044659 -Gossypium turneri (D10) genome NSF_v1_a2n/a
A04chromosomeA04:54348719..54348918 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A04chromosomeGhir_A04:75378603..75378802 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A04chromosomeA04:78315140..78315339 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A04chromosomeA04:75513269..75513468 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A04chromosomeA04:71142148..71142347 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_A04chromosomeGbar_A04:72184974..72185173 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A04chromosomeA04:72770691..72770890 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017613.1chromosomeCM017613.1:74172404..74172603 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017639.1chromosomeCM017639.1:82396484..82396683 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017691.1chromosomeCM017691.1:72555485..72555684 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A04chromosomeA04:79157664..79157863 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr04chromosomeChr04:98806582..98806781 -Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr04chromosomeChr04:100721921..100722120 -Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
B_02chromosomeB_02:9933245..9933444 +Gossypium anomalum (B1) genome NSF_v1n/a
chr12chromosomechr12:22971440..22971639 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_12chromosomeChr_12:18531653..18531852 -Gossypium harknessii (D2-2) genome ISU_v1n/a
F04chromosomeF04:82496211..82496410 -Gossypium longicalyx (F1) genome NSF_v1n/a
Germplasm
Stock NameType
Acala Maxxaaccession
PD-1accession
Sealand 542accession
Fibermax 832accession
TM-1accession
Sequence
>UCD_Gh_M_000043 ID=UCD_Gh_M_000043; Name=UCD_Gh_M_000043; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GCTTGCAACAGCGCCACGTCCACCTCCTCTGCTTCTTCCATCTAAAGCCA
TCAACCATCCCAAACCCTCCTTCATTTGACCCCCACAGTCGCATCCTCAA
[C/T]TCTTTGAAACAATGTACCCACATCTCTCAGCTCAAACAAATCCAC
GCCCTGACCCTTCGTTCCACTTCACCGTACCATCCAAAAACCTTCTTTTT
ATACT