CIR0412, CIR0412 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0412
AliasCIR412
Genbank IDAJ567336
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567336
Source Typegenomic
Repeat Motif(TG)8
PCR ConditionAnnealing temperature: 51
Primer 1CIR412_F: CAGTTTATATCCCCTAAATG
Primer 2CIR412_R: AGTCACTAATTCAACACACA
Product Length169
PolymorphismP_ CIR0412
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567336
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D07chromosomeD07:7719534..7719705 +
A07chromosomeA07:8401468..8401635 +
CM018221.1chromosomeCM018221.1:7321556..7321727 +
CM018208.1chromosomeCM018208.1:8591918..8592087 +
D5_07chromosomeD5_07:7238038..7238212 +
Chr07_CRI-A2_v1.0.a1chromosomeChr07_CRI-A2_v1.0.a1:8641624..8641791 +
D10_07chromosomeD10_07:46574458..46574622 -
CM016620.1chromosomeCM016620.1:104821452..104821630 -
scaffold120.1supercontigscaffold120.1:550986..551153 -
Dt_chr1chromosomeDt_chr1:40081252..40081423 -
D07chromosomeD07:7258981..7259152 +
A07chromosomeA07:7745259..7745426 +
scaffold69108supercontigscaffold69108:128..299 -
Ghir_D07chromosomeGhir_D07:7566939..7567110 +
Ghir_A07chromosomeGhir_A07:8708377..8708544 +
D07chromosomeD07:7243823..7243994 +
A07chromosomeA07:8237729..8237896 +
D07chromosomeD07:7517901..7518072 +
A07chromosomeA07:8673914..8674081 +
D07chromosomeD07:7372282..7372453 +
A07chromosomeA07:8744059..8744226 +
scaffold8834supercontigscaffold8834:89703..89874 -
scaffold1821supercontigscaffold1821:90225..90394 -
scaffold1821supercontigscaffold1821:74251..74422 -
Gbar_D07chromosomeGbar_D07:7613399..7613570 +
Gbar_A07chromosomeGbar_A07:8549896..8550065 +
D07chromosomeD07:7459839..7460010 +
A07chromosomeA07:8370255..8370424 +
CM017629.1chromosomeCM017629.1:7717293..7717464 +
CM017616.1chromosomeCM017616.1:8360355..8360523 +
CM017655.1chromosomeCM017655.1:7738899..7739070 +
CM017642.1chromosomeCM017642.1:8584878..8585045 +
CM017707.1chromosomeCM017707.1:7579160..7579331 +
CM017694.1chromosomeCM017694.1:8487392..8487561 +
D07chromosomeD07:7650626..7650797 +
A07chromosomeA07:8744224..8744391 +
Chr07chromosomeChr07:8839838..8840005 +
Chr07chromosomeChr07:8739311..8739478 +
Chr07chromosomeChr07:46341824..46342001 -
Chr01chromosomeChr01:7415056..7415226 +
chr01chromosomechr01:6782345..6782533 +
Chr01chromosomeChr01:7351699..7351872 +
Chr01chromosomeChr01:6115270..6115440 +
Chr01chromosomeChr01:5169141..5169314 +
Chr01chromosomeChr01:6467470..6468015 +
E07chromosomeE07:83939362..83939536 -
F07chromosomeF07:7740350..7740528 +
Chr07chromosomeChr07:12976371..12976550 +
Chr01chromosomeCIR0412:1..330 .
Chr01:7162413..7162747 +
Chr1chromosomeCIR0412:1..330 .
Chr1:30615645..30615980 -
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567336AJ567336Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch07_At.07N/A181.7CIR412View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch07_At.07N/A85CIR412View
3Guazuncho-2 x VH8-4602, RIL (2009)AD_ch07_At.07N/A50.43CIR412View
4TM-1 x 3-79, RIL (2012)AD_ch07_At.07N/A44.45CIR412View
5TM-1 x 3-79, RIL (2014)AD_ch07_At.07N/A93.3CIR412View
6AD-genome wide Reference Map (2009)AD_ch07_At.07N/A169cir0412View
7TM-1 x 3-79, RIL (2012.v3)AD_ch07_At.07N/A93.33CIR412View
Sequence
>CIR0412 ID=CIR0412; Name=CIR0412; organism=Gossypium hirsutum; type=genetic_marker; length=169bp
CAGTTTATATCCCCTAAATGTAATAAAAAGGTTGAAGTGTTATAAAATGT
AAATCAATTACTATGCTTAAATCGATTTCAAGGGCCTAAAGAATATCTTA
GCGCAAGTATTCGGGTTAGAATGGTGCCCAAGTGTGCTTTGTGTGTGTGT
GTGTGTTGAATTAGTGACT