TMB0446, TMB0446 (genetic_marker) Gossypium hirsutum

Marker Overview
NameTMB0446
AliasTMK01
Genbank IDBV679366
TypeSSR
SpeciesGossypium hirsutum
GermplasmTM-1
Source SequenceBV679366.1
Source Typegenomic
Repeat Motif(CA)10
PCR ConditionAnnealing temperature: 55
Primer 1TMB0446_F: GCTTCTTTCTCTGGCTGCTG
Primer 2TMB0446_R: GAAAGGGGGCTGATTTTGAG
Product Length176
ContactYu, John Z. (Zhi-Hong)
CommentPrimer data obtained in 2005-10
Contact
NameDetails
Yu, John Z. (Zhi-Hong)
Description:Cotton molecular genetics and genomics including integrative genome mapping and QTL identification from the Gossypium germplasm.
First name:John
Last name:Yu
Title:Research Geneticist
Institution:USDA-ARS
Address:2765 F&B Road, College Station, Texas 77845
Country:United States
Email:zyu@qutun.tamu.edu
Phone:1-979-260-9237
Fax:1-979-260-9333
Keywords:Cotton Molecular Genetics
Last update:6-Sep-2007
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankBV679366
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D04chromosomeD04:47116867..47117052 +
A04chromosomeA04:71642294..71642469 +
CM018218.1chromosomeCM018218.1:45265211..45265394 +
CM018205.1chromosomeCM018205.1:70299177..70299364 +
D5_04chromosomeD5_04:8815090..8815277 -
KI_2_4chromosomeKI_2_4:5481239..5481424 -
Chr04_CRI-A2_v1.0.a1chromosomeChr04_CRI-A2_v1.0.a1:11308121..11308300 -
D10_04chromosomeD10_04:44115989..44116173 +
D04chromosomeD04:42061879..42062064 +
A04chromosomeA04:52819740..52819915 +
Ghir_D04chromosomeGhir_D04:46987142..46987327 +
Ghir_A04chromosomeGhir_A04:73844619..73844794 +
D04chromosomeD04:47956253..47956438 +
A04chromosomeA04:76823058..76823233 +
D04chromosomeD04:46880166..46880351 +
A04chromosomeA04:73973453..73973628 +
D04chromosomeD04:44868856..44869041 +
A04chromosomeA04:69607253..69607428 +
At04chromosomeAt04:54061084..54061275 +
At04chromosomeAt04:54057925..54058107 +
scaffold2236supercontigscaffold2236:90298..90489 +
scaffold2236supercontigscaffold2236:87139..87321 +
scaffold9347supercontigscaffold9347:258238..258421 -
Gbar_D04chromosomeGbar_D04:43356607..43356790 +
Gbar_A04chromosomeGbar_A04:70639487..70639674 +
D04chromosomeD04:48466640..48466823 +
A04chromosomeA04:71251138..71251325 +
CM017626.1chromosomeCM017626.1:45582090..45582273 +
CM017613.1chromosomeCM017613.1:72738829..72739004 +
CM017652.1chromosomeCM017652.1:48416168..48416351 +
CM017639.1chromosomeCM017639.1:80832868..80833043 +
CM017704.1chromosomeCM017704.1:45533288..45533471 +
CM017691.1chromosomeCM017691.1:71015899..71016084 +
D04chromosomeD04:48674973..48675158 +
A04chromosomeA04:77595328..77595503 +
Chr04chromosomeChr04:97267771..97267948 +
Chr04chromosomeChr04:99145215..99145394 +
Chr04chromosomeChr04:8766345..8766530 -
B_02chromosomeB_02:11202597..11202783 -
Chr12chromosomeChr12:45174019..45174204 +
Chr12chromosomeChr12:44826733..44826918 +
Chr12chromosomeChr12:16145863..16146050 +
E04chromosomeE04:92180238..92180427 +
F04chromosomeF04:81405096..81405289 +
Chr04chromosomeChr04:153716630..153716822 +
Germplasm
Stock NameType
TM-1accession
Relationships

The following sequence_feature feature(s) derives from this genetic_marker:

Feature NameUnique NameSpeciesType
BV679366.1BV679366.1Gossypium hirsutumsequence_feature


Image
File NameLegend
48_FISH_TAG-115-675.jpgTwenty-six individual cotton mitotic chromosomes with FISH signals derived from the chromosome-speciWc BACs, and comparisons of linkage and FISH maps. [Image from Wang 2007, TAG-115-675]
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1AD-genome wide Reference Map (2009)AD_ch04_At.04N/A59TMB0446View
2CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch04_At.04N/A71.2TMB0446View
3TM-1 x 3-79, RIL (2012)AD_ch04_At.04N/A54.23TMB0446aView
4TM-1 x 3-79, RIL (2014)AD_ch04_At.04N/A55.3TMB0446aView
5TM-1 x 3-79, RIL (2012)AD_ch22_Dt.04N/A31.5TMB0446bView
6TM-1 x 3-79, RIL (2014)AD_ch22_Dt.04N/A65.6TMB0446bView
7Vsg x (TM-1 x Hai-7124), DH (2005)AD_ch04_At.04N/A41TMK01-180View
8Xinluzao-1 x Hai-7124, F2 (2008)AD_ch04_At.04N/A32.4TMHK01View
9TM-1 x 3-79, RIL (2012.v3)AD_ch04_At.04N/A54.64TMB0446aView
10TM-1 x 3-79, RIL (2012.v3)AD_ch22_Dt.04N/A65.61TMB0446bView
Sequence
>TMB0446 ID=TMB0446; Name=TMB0446; organism=Gossypium hirsutum; type=genetic_marker; length=176bp
GCTTCTTTCTCTGGCTGCTGGGACTGCTCTGTTTCCCATCAGTTCGTTCA
CTTGAAGCAAAAGTGCCTCAATTCTCAAATCACACACACACACACACACA
TCGATAGTGCAACATGCCTTGCATTATGGATTAAGGAGGTTTGAGAAGAT
TTTTACCTCAAAATCAGCCCCCTTTC