CIR0343, CIR0343 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0343
AliasCIR343
Genbank IDAJ567280
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567280
Source Typegenomic
Repeat Motif(TG)4(N)1(GT)5
PCR ConditionAnnealing temperature: 51
Primer 1CIR343_F: CCAACAAGACCGACA
Primer 2CIR343_R: GAGGGTGAAAGAGAGAGA
Product Length235
PolymorphismP_ CIR0343
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567280
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D08chromosomeD08:4179370..4179604 +
CM018222.1chromosomeCM018222.1:3408559..3408792 +
CM018209.1chromosomeCM018209.1:3350126..3350353 +
D5_08chromosomeD5_08:3362261..3362494 +
KI_08chromosomeKI_08:3026603..3026828 +
KI_11chromosomeKI_11:1086224..1086449 -
KI_07chromosomeKI_07:19481785..19482010 -
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:3459132..3459365 +
D10_08chromosomeD10_08:58903993..58904225 -
scaffold1865.1supercontigscaffold1865.1:82652..82886 -
D08chromosomeD08:3530637..3530871 +
D08chromosomeD08:3329334..3329568 +
D08chromosomeD08:3498410..3498644 +
D08chromosomeD08:3560520..3560754 +
At08chromosomeAt08:2740964..2741191 +
scaffold4707supercontigscaffold4707:211070..211297 +
scaffold2529supercontigscaffold2529:110561..110794 -
Gbar_D08chromosomeGbar_D08:3437269..3437502 +
Gbar_A08chromosomeGbar_A08:3615529..3615756 +
D08chromosomeD08:3323880..3324113 +
A08chromosomeA08:3440179..3440406 +
CM017630.1chromosomeCM017630.1:3576863..3577096 +
CM017617.1chromosomeCM017617.1:3484124..3484351 +
CM017656.1chromosomeCM017656.1:3599687..3599920 +
CM017643.1chromosomeCM017643.1:3646754..3646981 +
CM017708.1chromosomeCM017708.1:3472998..3473231 +
CM017695.1chromosomeCM017695.1:3348473..3348700 +
D08chromosomeD08:3554069..3554303 +
Chr08chromosomeChr08:3839682..3839915 +
Chr08chromosomeChr08:3805900..3806133 +
Chr08chromosomeChr08:3347006..3347240 +
B_08chromosomeB_08:4027977..4028208 +
Chr04chromosomeChr04:3444456..3444687 +
chr04chromosomechr04:3251322..3251555 +
Chr_04chromosomeChr_04:2851841..2852074 +
Chr04chromosomeChr04:3513618..3513851 +
Chr04chromosomeChr04:3435923..3436156 +
Chr04chromosomeChr04:2589825..2590059 +
Chr04chromosomeChr04:2947527..2947760 +
E08chromosomeE08:5080830..5081064 +
F08chromosomeF08:3087448..3087681 +
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567280AJ567280Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch08_At.08N/A152.9CIR343View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch24_Dt.08N/A102.03CIR343View
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch08_At.08N/A158.5CIR343View
4Guazuncho-2 x VH8-4602, RIL (2009)AD_ch24_Dt.08N/A83.07CIR343View
5TM-1 x 3-79, RIL (2006)AD_ch08_At.08N/A22.5CIR343View
6TM-1 x 3-79, RIL (2012)AD_ch08_At.08N/A26.01CIR343View
7Emian-22 x 3-79, BC1 (2011)AD_ch08_At.08N/A125.71CIR343View
8TM-1 x 3-79, RIL (2014)AD_ch08_At.08N/A37.3CIR343View
9CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch08_At.08N/A82.9CIR343View
10Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch08_At.08N/A214.3CIR343bView
11Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch24_Dt.08N/A138.1CIR343aView
12AD-genome wide Reference Map (2009)AD_ch08_At.08N/A212cir0343View
13AD-genome wide Reference Map (2009)AD_ch24_Dt.08N/A38cir0343View
14TM-1 x Hai-7124, BC1 (2007)AD_ch08_At.08N/A38.6CIR343-220View
15TM-1 x Hai-7124, BC1 (2008)AD_ch08_At.08N/A88.51CIR343-220View
16TM-1 x Hai-7124, BC1 (2012)AD_ch08_At.08N/A44.6CIR343-220View
17TM-1 x 3-79, RIL (2012.v3)AD_ch08_At.08N/A37.29CIR343View
18PD 94042 x (AD)4-08, F2 (2016)AD_ch08_At.08N/A97CIR343View
Sequence
>CIR0343 ID=CIR0343; Name=CIR0343; organism=Gossypium hirsutum; type=genetic_marker; length=235bp
CCAACAAGACCGACAATTATGTGGCTTTTAAGGTAATCATGCTGATTCTC
AAATTAAATTTGGATTTTTTTTCTAATTTAAGGAGACTTTGGTTCTATAT
TGTGTGTGCGTGTGTGTGTTTCATTTTTTTGCAGGTCAAAACGACAAATC
CAAAGAAGTACTGTGTAAGGCCAAATACTGGAGTTGTGCTGCCTAGGTCT
ACGTGCAACGTTGTTGGTCTCTCTCTTTCACCCTC