CIR0054, CIR0054 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0054
AliasCIR54
CIR054
Genbank IDAJ567003
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567003
Source Typegenomic
Repeat Motif(AC)4(N)1(CA)3
PCR ConditionAnnealing temperature: 55
Primer 1CIR054_F: TTTCCCTGGTATGCTG
Primer 2CIR054_R: CAATTTCTTCCTCTCGTT
Product Length154
PolymorphismP_ CIR0054
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567003
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D13chromosomeD13:2723059..2723224 +
A13chromosomeA13:3351389..3351542 +
CM018214.1chromosomeCM018214.1:2986437..2986586 +
D5_13chromosomeD5_13:2261952..2262125 +
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:3128929..3129082 +
CM016618.1chromosomeCM016618.1:93915457..93915608 -
Dt_chr7chromosomeDt_chr7:36814196..36814349 +
Dt_chr13chromosomeDt_chr13:54402606..54402771 -
D13chromosomeD13:2611002..2611155 +
A13chromosomeA13:3077698..3077851 +
Ghir_D13chromosomeGhir_D13:2563258..2563423 +
Ghir_A13chromosomeGhir_A13:2944669..2944822 +
D13chromosomeD13:2443516..2443681 +
A13chromosomeA13:3073119..3073272 +
D13chromosomeD13:2571365..2571530 +
A13chromosomeA13:2859439..2859592 +
D13chromosomeD13:2594705..2594870 +
A13chromosomeA13:2943220..2943373 +
scaffold32014supercontigscaffold32014:31996..32145 -
scaffold32014supercontigscaffold32014:29712..29861 -
Gbar_A13chromosomeGbar_A13:3034331..3034480 +
A13chromosomeA13:2953271..2953420 +
CM017635.1chromosomeCM017635.1:2419401..2419570 +
CM017622.1chromosomeCM017622.1:3121029..3121182 +
CM017661.1chromosomeCM017661.1:2639198..2639365 +
CM017648.1chromosomeCM017648.1:3076737..3076890 +
CM017700.1chromosomeCM017700.1:2772606..2772755 +
D13chromosomeD13:2673495..2673660 +
A13chromosomeA13:3202826..3202979 +
Chr13chromosomeChr13:3062387..3062540 +
Chr13chromosomeChr13:2961178..2961331 +
Chr13chromosomeChr13:2270690..2270855 +
B_13chromosomeB_13:92053822..92053988 -
Chr13chromosomeChr13:2380227..2380390 +
chr13chromosomechr13:2414084..2414336 +
Chr_13chromosomeChr_13:2600602..2600818 +
Chr13chromosomeChr13:2594105..2594261 +
Chr13chromosomeChr13:2567171..2567331 +
Chr13chromosomeChr13:1827506..1827736 +
Chr13chromosomeChr13:2561564..2561755 +
E13chromosomeE13:3455556..3455708 +
F13chromosomeF13:2548425..2548581 +
Chr05chromosomeChr05:112267579..112267729 -
Chr13chromosomeCIR0054:1..206 .
Chr13:2224605..2224821 +
Chr13chromosomeCIR0054:1..206 .
Chr13:40883543..40883868 -
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567003AJ567003Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch13_At.13N/A171.55CIR054View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch13_At.13N/A124.34CIR054View
3Guazuncho-2 x VH8-4602, RIL (2009)AD_ch13_At.13N/A72.93CIR054View
4TM-1 x 3-79, RIL (2012)AD_ch13_At.13N/A27.67CIR054View
5Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch13_At.13N/A193.6CIR054View
6H18 x TM-1, F2 (2005)AD_ch13_At.13N/A19.2CIR054View
7TM-1 x 3-79, RIL (2014)AD_ch13_At.13N/A27.2CIR054View
8Handan-208 x Pima-90, F2:3 (2007)AD_ch13_At.13N/A143CIR054a*View
9AD-genome wide Reference Map (2009)AD_ch13_At.13N/A195cir0054View
10TM-1 x Hai-7124, BC1 (2007)AD_ch13_At.13N/A101.3CIR054-160View
11TM-1 x Hai-7124, BC1 (2008)AD_ch13_At.13N/A102.02CIR054-160View
12TM-1 x Hai-7124, BC1 (2012)AD_ch13_At.13N/A34.7CIR054-160View
13TM-1 x 3-79, RIL (2012.v3)AD_ch13_At.13N/A27.21CIR054View
Sequence
>CIR0054 ID=CIR0054; Name=CIR0054; organism=Gossypium hirsutum; type=genetic_marker; length=154bp
TTTCCCTGGTATGCTGCATTTTTTGTTGAAAAACTCCGCCATCTACGTAC
ACACCCACCCACCCACCAATCATACACACACAGACACACTAAGATTATGG
GTTTAAAGATTGAGAGGTACATCAACAAAAATGAAAAACGAGAGGAAGAA
ATTG