CIR0354, CIR0354 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0354
AliasCIR354
Genbank IDAJ567289
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567289
Source Typegenomic
Repeat Motif(AC)6
PCR ConditionAnnealing temperature: 51
Primer 1CIR354_F: CACAATCCTCAGCCA
Primer 2CIR354_R: AGAGAAGGAAAGAGGAAA
Product Length126
PolymorphismP_ CIR0354
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567289
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
A08chromosomeA08:115936517..115936642 +
CM018222.1chromosomeCM018222.1:58497496..58497622 +
CM018209.1chromosomeCM018209.1:111212925..111213056 +
Chr08_CRI-A2_v1.0.a1chromosomeChr08_CRI-A2_v1.0.a1:120836547..120836675 +
scaffold1577.1supercontigscaffold1577.1:47272..47397 -
A08chromosomeA08:96452110..96452235 +
Ghir_A08chromosomeGhir_A08:114506093..114506217 +
A08chromosomeA08:117312318..117312443 +
A08chromosomeA08:117323613..117323738 +
A08chromosomeA08:113278460..113278585 +
At08chromosomeAt08:100777849..100777983 +
scaffold1221supercontigscaffold1221:40367..40501 +
scaffold24661supercontigscaffold24661:79641..79767 -
scaffold24661supercontigscaffold24661:76482..76608 -
Gbar_D08chromosomeGbar_D08:58544609..58544735 +
Gbar_A08chromosomeGbar_A08:111892646..111892776 +
D08chromosomeD08:60460274..60460400 +
A08chromosomeA08:112967215..112967340 +
CM017630.1chromosomeCM017630.1:60098849..60098974 +
CM017617.1chromosomeCM017617.1:111398769..111398896 +
CM017643.1chromosomeCM017643.1:120993818..120993947 +
CM017708.1chromosomeCM017708.1:58816243..58816368 +
CM017695.1chromosomeCM017695.1:112067059..112067189 +
A08chromosomeA08:119219204..119219329 +
Chr08chromosomeChr08:123549632..123549758 +
Chr08chromosomeChr08:124485953..124486080 +
Chr04chromosomeChr04:57053580..57053706 +
Chr04chromosomeChr04:59479668..59479791 +
Chr04chromosomeChr04:37617361..37617487 +
Chr04chromosomeChr04:38297238..38297409 +
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567289AJ567289Gossypium 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
1Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch08_At.08N/A75.7CIR354aView
2Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch24_Dt.08N/A47.3CIR354bView
3Guazuncho-2 x VH8-4602, consensus (2009)AD_ch24_Dt.08N/A41.19CIR354View
4Guazuncho-2 x VH8-4602, consensus (2009)AD_ch08_At.08N/A55.21CIR354View
5Guazuncho-2 x VH8-4602, RIL (2009)AD_ch24_Dt.08N/A29.81CIR354View
6Yumian-1 x T586, F2:7 (2008)AD_ch24_Dt.08N/A0CIR354View
7Yumian-1 x T586, RIL (2006)AD_ch24_Dt.08N/A48.7CIR354View
8Yumian-1 x T586, RIL (2015)AD_ch24_Dt.08N/A114.7CIR354View
9CCRI 12-4 x (AD)5-7, F2 (2015)AD_ch08_At.08N/A17.3CIR354View
10Handan-208 x Pima-90, F2:3 (2007)AD_ch08_At.08N/A82.6CIR354*View
11AD-genome wide Reference Map (2009)AD_ch08_At.08N/A57cir0354View
12AD-genome wide Reference Map (2009)AD_ch24_Dt.08N/A182cir0354View
13Yumian-1 x T586, RIL (2009)AD_ch24_Dt.08N/A79.9CIR354/170t(C24)View
14PD 94042 x (AD)4-08, F2 (2016)AD_ch08_At.08N/A222.4CIR354bView
15PD 94042 x (AD)4-08, F2 (2016)AD_ch24_Dt.08N/A57.8CIR354aView
16TM-1 x Hai-7124, BC1 (2012)AD_ch01_At.01N/A92.2CIR354-230View
Sequence
>CIR0354 ID=CIR0354; Name=CIR0354; organism=Gossypium hirsutum; type=genetic_marker; length=126bp
CACAATCCTCAGCCATCGGCGATACTTCTTCATCAAATCGATAAAATTTA
CAAAAAAAAAAAATGGCAAATTTATAAAAACATACACACACACACTTCGC
CTGGTGAGTTTCCTCTTTCCTTCTCT