TMB0471, TMB0471 (genetic_marker) Gossypium hirsutum

Marker Overview
NameTMB0471
AliasTMK08
Genbank IDBV679890
TypeSSR
SpeciesGossypium hirsutum
GermplasmTM-1
Source Sequencereverse_complement_BV679890.1
Source Typegenomic
Repeat Motif(GA)30
PCR ConditionAnnealing temperature: 55
Primer 1TMB0471_F: AAGAATTAGCGGAAGTGGTCA
Primer 2TMB0471_R: TTTGACAAAACATGGATGGA
Product Length207
PolymorphismP_ TMB0471
ContactYu, John Z. (Zhi-Hong)
CommentPrimer data obtained in 2005-10
Germplasm
Stock NameType
TM-1breeding_germplasm
Relationships

This genetic_marker is adjacent to the following primer feature(s):

Feature NameUnique NameSpeciesType
TMB0471_FTMB0471_FGossypium hirsutumprimer
TMB0471_RTMB0471_RGossypium hirsutumprimer


This genetic_marker is located in the following QTL feature(s):

Feature NameUnique NameSpeciesType
fiber strengthqFS.CY-RIL_ch02.swu08Gossypium hirsutumQTL
upper half mean lengthqUHML.CY-RIL.17_ch02.ez15Gossypium hirsutumQTL


The following marker_locus feature(s) are an instance of this genetic_marker:

Feature NameUnique NameSpeciesType
TMK08TMK08Gossypium hirsutummarker_locus
TMK08bTMK08bGossypium hirsutummarker_locus
TMK08aTMK08aGossypium hirsutummarker_locus
tmb0471tmb0471Gossypium hirsutummarker_locus
TMB0471aTMB0471aGossypium hirsutummarker_locus
TMB0471bTMB0471bGossypium hirsutummarker_locus
TMK08-175TMK08-175Gossypium hirsutummarker_locus
TMK08-260TMK08-260Gossypium hirsutummarker_locus
TMHK08TMHK08Gossypium hirsutummarker_locus
TMB0471/190t(C2)TMB0471/190t(C2)Gossypium hirsutummarker_locus
TMB0471TMB0471-62.704Gossypium hirsutummarker_locus
TMB0471aTMB0471a-57.274Gossypium hirsutummarker_locus
TMB0471bTMB0471b-52.265Gossypium hirsutummarker_locus


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

Feature NameUnique NameSpeciesType
reverse_complement_BV679890.1reverse_complement_BV679890.1Gossypium hirsutumsequence_feature


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
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D03chromosomeD03:22664773..22664978 +
A02chromosomeA02:52751819..52752023 +
CM018217.1chromosomeCM018217.1:26290330..26290505 +
CM018203.1chromosomeCM018203.1:63117116..63117283 +
D5_02chromosomeD5_02:21957125..21957306 -
Chr2chromosomeChr2:79829653..79829834 -
Chr02_CRI-A2_v1.0.a1chromosomeChr02_CRI-A2_v1.0.a1:43366059..43366240 -
Chr4chromosomeChr4:17728902..17729083 -
CM016615.1chromosomeCM016615.1:64255174..64255335 +
Dt_chr3chromosomeDt_chr3:30850770..30850973 +
At_chr3chromosomeAt_chr3:55494941..55495229 +
D03chromosomeD03:17801435..17801610 +
scaffold105347supercontigscaffold105347:170..381 -
Ghir_D03chromosomeGhir_D03:26072285..26072492 +
Ghir_A02chromosomeGhir_A02:57322211..57322455 -
D03chromosomeD03:27192961..27193170 +
A02chromosomeA02:54941663..54941869 -
D03chromosomeD03:27009382..27009584 +
A02chromosomeA02:55335631..55335837 -
D03chromosomeD03:26092207..26092416 +
A02chromosomeA02:54788353..54788595 -
Dt03chromosomeDt03:19412261..19412436 +
scaffold7905supercontigscaffold7905:44827..45002 +
scaffold7188supercontigscaffold7188:155316..155483 -
Gbar_D03chromosomeGbar_D03:25102133..25102306 +
Gbar_A02chromosomeGbar_A02:63371133..63371300 +
D03chromosomeD03:26644621..26644796 +
A02chromosomeA02:54857095..54857262 -
CM017625.1chromosomeCM017625.1:26340569..26340746 +
CM017611.1chromosomeCM017611.1:64777112..64777345 +
CM017651.1chromosomeCM017651.1:29315481..29315686 +
CM017637.1chromosomeCM017637.1:69724428..69724607 +
CM017703.1chromosomeCM017703.1:26754767..26754942 +
CM017689.1chromosomeCM017689.1:64680583..64680750 +
Chr4chromosomeTMB0471:13..439 .
Chr4:17728792..17729191 +
Sequence
>TMB0471 ID=TMB0471|Name=TMB0471|organism=Gossypium hirsutum|type=genetic_marker|length=207bp
AAGAATTAGCGGAAGTGGTCACCTCTTATTTCCAAAATGCTTCACTATCT
CTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTTTAACTTTATAATCTATTCTCTTAACTAACTAAACTA
CAGTAAATTGAGCCCAAATATTATATAGATATACAAATCCATCCATGTTT
TGTCAAA
Map Positions
#Map NameLinkage GroupBinChromosomePositionLocusMapViewer
1(Simian-3 x Sumian-12) x (Zhong-4133 x 8891), 4WC (2008) part(Simian-3 x Sumian-12) x (Zhong-4133 x 8891), 4WC (2008) part.SSZ8-4WC_D03N/AAD_chr.170TMK08View
2PD6992 x SM3, F2:3 (2005)PDSM-F2:3_chr02N/AAD_chr.0213.1TMK08View
3TM-1 x (TX-0256 + TX-1046), CSIL (2016)TTT-CSIL_chr02N/AAD_chr.0270.5TMK08View
40-153 x sGK9708, RIL (2016)0s-RIL_chr17-2N/AAD_chr.176.1TMK08View
5CCRI-36 x Hai-7124, F2 (2007)CCRI-36 x Hai-7124, F2 (2007).CH-F2_chr02N/AAD_chr.0255.3TMK08bView
6CCRI-36 x Hai-7124, F2 (2007)CCRI-36 x Hai-7124, F2 (2007).CH-F2_chr17N/AAD_chr.1782.7TMK08aView
7AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr17N/AAD_chr.17129tmb0471View
8AD-genome wide Reference Map (2009)AD-genome wide Reference Map (2009).Ref-chr02N/AAD_chr.0288tmb0471View
9Yumian-1 x T586, RIL (2006)YT-RIL_chr02-2N/AAD_chr.020tmb0471View
10(YM-1 x CCRI-35) x (YM-1 x 7235), 4WC (2012)YCY7-4WC_chr02-2N/AAD_chr.0232.1tmb0471View
11Yumian-1 x T586, RIL (2015)YT-RIL.15_chr02N/AAD_chr.0260tmb0471View
12W10 x TM-1, F2:3 (2015)WT-F2:3_chr02-1N/AAD_chr.02107.1tmb0471View
13CCRI 12-4 x (AD)5-7, F2 (2015)CAD5-F2_chr02N/AAt.0299tmb0471View
14CCRI-35 x Yumian-1, RIL (2015)CY-RIL_chr02N/AAD_chr.0258.9tmb0471View
15TM-1 x 3-79, RIL (2012)TM-1 x 3-79, RIL (2012).T3-RIL.12_c02N/AAD_chr.0257.79TMB0471aView
16TM-1 x 3-79, RIL (2014)T3-RIL.14_chr02N/AAD_chr.0257.3TMB0471aView
17TM-1 x 3-79, RIL (2012)TM-1 x 3-79, RIL (2012).T3-RIL.12_c17N/AAD_chr.1768.96TMB0471bView
18TM-1 x 3-79, RIL (2014)T3-RIL.14_chr17N/AAD_chr.1752.3TMB0471bView
19TM-1 x Hai-7124, BC1 (2007)TM-1 x Hai-7124, BC1 (2007).TH-BC1_chr02N/AAD_chr.0261.3TMK08-175View
20TM-1 x Hai-7124, BC1 (2008)TM-1 x Hai-7124, BC1 (2008).TH-BC1.08_chr02/A2N/AAD_chr.0253.53TMK08-175View
21Vsg x (TM-1 x Hai-7124), DH (2005)Vsg x (TM-1 x Hai-7124), DH (2005).VTH-DH.05_chr02N/AAD_chr.0291.1TMK08-175View
22TM-1 x Hai-7124, BC1 (2008)TM-1 x Hai-7124, BC1 (2008).TH-BC1.08_chr17/D3N/AAD_chr.170TMK08-260View
23Xinluzao-1 x Hai-7124, F2 (2008)Xinluzao-1 x Hai-7124, F2 (2008).XH-F2_lg6/chr02N/AAD_chr.02128.3TMHK08View
24Yumian-1 x T586, RIL (2009)YT-RIL_chr02-1N/AAD_chr.0293.2TMB0471/190t(C2)View
25CCRI-35 x Yumian-1, RIL (2017)CY-RIL.17_chr02N/AAt.0262.7TMB0471-62.704View
26TM-1 x 3-79, RIL (2012.v3)T3-RIL.12v3_chr.02N/AAD_chr.0257.27TMB0471a-57.274View
27TM-1 x 3-79, RIL (2012.v3)T3-RIL.12v3_chr.17N/AAD_chr.1752.27TMB0471b-52.265View
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankBV679890