UCD_Gh_M_000189, UCD_Gh_M_000189 (genetic_marker) Gossypium hirsutum

Marker Overview
NameUCD_Gh_M_000189
AliasGh_M_000189
Tm1_Mira454_Contig_552_1078
dbSNP IDN/A
TypeSNP
SNP AllelesG/A
5' Flanking SequenceTGGGATATAAGAACCATGAAAATCACGCATGCGACCTCTCATGTAAGGATCACAAGAGAG ATAGAGATTCTTGACTAGAAAAGCACCCGAGCCTTTGGGA
3' Flanking SequenceCCTTCAACTCTATTTTCCCAATCTTCATTGCCATGTCTGTCACCTTGGGTACTCCTTCTA TGTACCTTTCAAGCACCACTTGCCTGTTCTCTACTGTCGC
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
CM018227.1chromosomeCM018227.1:1706411..1706611 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:1461318..1461518 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_13chromosomeKI_13:979845..980045 +Gossypioides kirkii genome ISU_v3n/a
CM016618.1chromosomeCM016618.1:95061132..95061332 -Gossypium australe (G2) genome CRI_v1.1n/a
At_chr2chromosomeAt_chr2:9284266..9284466 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D13chromosomeD13:1733860..1734060 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D13chromosomeGhir_D13:1686715..1686915 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D13chromosomeD13:1588431..1588631 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:1678869..1679069 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:1668736..1668936 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Gbar_D13chromosomeGbar_D13:1488334..1488534 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D13chromosomeD13:1490160..1490360 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017635.1chromosomeCM017635.1:1573538..1573738 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017713.1chromosomeCM017713.1:1616576..1616776 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D13chromosomeD13:1765616..1765816 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:1469205..1469405 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr13chromosomeChr13:1511260..1511460 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr13chromosomechr13:1522739..1522939 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr13chromosomeChr13:1718882..1719082 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr13chromosomeChr13:1694417..1694617 +Gossypium aridum (D4) genome ISU_v1n/a
Chr13chromosomeChr13:1177330..1177530 +Gossypium gossypioides (D6) genome ISU_v1n/a
E13chromosomeE13:2314902..2315102 +Gossypium stocksii (E1) genome NSF_v1n/a
F13chromosomeF13:1594265..1594465 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr05chromosomeChr05:113471094..113471294 -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_000189 ID=UCD_Gh_M_000189; Name=UCD_Gh_M_000189; organism=Gossypium hirsutum; type=genetic_marker; length=205bp
TGGGATATAAGAACCATGAAAATCACGCATGCGACCTCTCATGTAAGGAT
CACAAGAGAGATAGAGATTCTTGACTAGAAAAGCACCCGAGCCTTTGGGA
[A/G]CCTTCAACTCTATTTTCCCAATCTTCATTGCCATGTCTGTCACCT
TGGGTACTCCTTCTATGTACCTTTCAAGCACCACTTGCCTGTTCTCTACT
GTCGC