UCD_Gh_M_000013, UCD_Gh_M_000013 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000013
AliasGh_M_000013
Tm1_Mira454_Contig_3005_1189
dbSNP IDN/A
TypeSNP
SNP AllelesA/G
5' Flanking SequenceGCCAAGGCCAGCTAGTTTAAACGCGTTCGACCTTATTTCTTTCTCCCCAGGGTTCAACCT ATCCGGGTTGTTCGAGGAAGGAGAAGAAGGCTCCCGGTTC
3' Flanking SequenceTTTCAGGGGCACCGGTTTCGACAATCATATCGAAATTGGAGGAGATAGCCAAGGTTGTTA GCTTTACAGTGAGGAAAAAGGATTGTAGAGTGAGCTTGGA
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
CM018224.1chromosomeCM018224.1:3022473..3022673 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_10chromosomeD5_10:59514000..59514200 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_10chromosomeD10_10:61105202..61105402 -Gossypium turneri (D10) genome NSF_v1_a2n/a
CM016623.1chromosomeCM016623.1:4136814..4137014 +Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr7chromosomeDt_chr7:24730284..24730484 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D10chromosomeD10:2943038..2943238 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:3444885..3445085 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:3122406..3122606 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:3233528..3233728 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:3292464..3292664 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D10chromosomeGbar_D10:3089276..3089476 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:3136246..3136446 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:3112156..3112356 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:3189375..3189575 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017710.1chromosomeCM017710.1:3143123..3143323 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D10chromosomeD10:3235104..3235304 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:2873275..2873475 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_10chromosomeB_10:98501308..98501508 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr11chromosomeChr11:2877011..2877211 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr11chromosomechr11:2961688..2961888 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_11chromosomeChr_11:2442639..2442839 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr11chromosomeChr11:3106184..3106384 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:2450935..2451135 +Gossypium aridum (D4) genome ISU_v1n/a
Chr11chromosomeChr11:2291665..2291865 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr11chromosomeChr11:3057931..3058131 +Gossypium lobatum (D7) genome ISU_v1n/a
E10chromosomeE10:110212277..110212477 -Gossypium stocksii (E1) genome NSF_v1n/a
F10chromosomeF10:3000001..3000201 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr10chromosomeChr10:165980187..165980387 -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_000013 ID=UCD_Gh_M_000013; Name=UCD_Gh_M_000013; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
GCCAAGGCCAGCTAGTTTAAACGCGTTCGACCTTATTTCTTTCTCCCCAG
GGTTCAACCTATCCGGGTTGTTCGAGGAAGGAGAAGAAGGCTCCCGGTTC
[A/G]TTTCAGGGGCACCGGTTTCGACAATCATATCGAAATTGGAGGAGA
TAGCCAAGGTTGTTAGCTTTACAGTGAGGAAAAAGGATTGTAGAGTGAGC
TTGGA