CIR0301, CIR0301 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0301
AliasCIR301
Genbank IDAJ567244
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567244
Source Typegenomic
Repeat Motif(TG)9
PCR ConditionAnnealing temperature: 55
Primer 1CIR301_F: ACCTTTAGTTTCTGGTCTTT
Primer 2CIR301_R: TTTACCGTTTAGTCCATTC
Product Length131
PolymorphismP_ CIR0301
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567244
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
A05chromosomeA05:59987057..59987186 +
D04chromosomeD04:12700371..12700502 -
CM018218.1chromosomeCM018218.1:11830062..11830193 -
CM018206.1chromosomeCM018206.1:70209091..70209224 -
D5_04chromosomeD5_04:39224479..39224600 +
KI_06chromosomeKI_06:60023514..60023657 +
tig00013637_CRI-A2_v1.0.a1chromosometig00013637_CRI-A2_v1.0.a1:397331..397460 +
D10_04chromosomeD10_04:12002812..12002939 -
CM016617.1chromosomeCM016617.1:20536254..20536385 -
At_chr7chromosomeAt_chr7:22699831..22699960 -
At_chr7chromosomeAt_chr7:12560428..12560559 -
A05chromosomeA05:54090990..54091119 +
D04chromosomeD04:11827195..11827326 -
Ghir_D04chromosomeGhir_D04:12451291..12451422 -
Ghir_A05chromosomeGhir_A05:75786162..75786291 -
D04chromosomeD04:12118409..12118540 -
A05chromosomeA05:78215206..78215335 -
D04chromosomeD04:12353258..12353387 -
A05chromosomeA05:76788250..76788379 -
D04chromosomeD04:11767302..11767433 -
A05chromosomeA05:75792107..75792236 -
At05chromosomeAt05:53106641..53106774 +
At05chromosomeAt05:53102557..53102690 +
scaffold3764supercontigscaffold3764:163062..163195 +
scaffold3764supercontigscaffold3764:158978..159111 +
scaffold11668supercontigscaffold11668:99883..100014 -
scaffold11668supercontigscaffold11668:101681..101812 -
Gbar_D04chromosomeGbar_D04:11898675..11898806 -
Gbar_A05chromosomeGbar_A05:71142080..71142213 -
D04chromosomeD04:11832010..11832141 -
A05chromosomeA05:74002259..74002392 -
CM017626.1chromosomeCM017626.1:11935363..11935494 -
CM017614.1chromosomeCM017614.1:73651407..73651536 -
CM017652.1chromosomeCM017652.1:12254637..12254768 -
CM017640.1chromosomeCM017640.1:77491092..77491221 -
CM017704.1chromosomeCM017704.1:11918613..11918744 -
CM017692.1chromosomeCM017692.1:72699697..72699826 -
D04chromosomeD04:12826823..12826954 -
A05chromosomeA05:78030409..78030538 -
Chr04chromosomeChr04:16441956..16442085 -
Chr04chromosomeChr04:16489619..16489750 -
Chr04chromosomeChr04:38999286..38999407 +
B_02chromosomeB_02:69293329..69293458 +
Chr12chromosomeChr12:12057220..12057349 -
chr12chromosomechr12:10926078..10926205 -
Chr12_5124227chromosomeChr12_5124227:21391..21518 -
Chr12chromosomeChr12:11948516..11948661 -
Chr12chromosomeChr12:10666455..10666657 -
Chr12chromosomeChr12:7724686..7724931 -
Chr12chromosomeChr12:9870796..9871008 -
E04chromosomeE04:20615869..20615990 -
F04chromosomeF04:14141159..14141288 -
Chr04chromosomeChr04:27761977..27762104 -
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567244AJ567244Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1CCRI-36 x Hai-7124, F2 (2007)AD_ch05_At.05N/A83.5CIR301View
2Emian-22 x 3-79, BC1 (2011)AD_ch05_At.05N/A189.82CIR301View
3Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch05_At.05N/A253.1CIR301View
4Guazuncho-2 x VH8-4602, consensus (2009)AD_ch05_At.05N/A91.74CIR301View
5Guazuncho-2 x VH8-4602, RIL (2009)AD_ch05_At.05N/A76.97CIR301View
6Handan-208 x Pima-90, F2:3 (2007)AD_ch18_Dt.13N/A11.9CIR301View
7TM-1 x 3-79, RIL (2012)AD_ch05_At.05N/A125.2CIR301View
8TM-1 x 3-79, RIL (2014)AD_ch05_At.05N/A75CIR301View
9AD-genome wide Reference Map (2009)AD_ch18_Dt.13N/A186cir0301View
10AD-genome wide Reference Map (2009)AD_ch05_At.05N/A204cir0301View
11TM-1 x 3-79, RIL (2012.v3)AD_ch05_At.05N/A74.96CIR301View
Sequence
>CIR0301 ID=CIR0301; Name=CIR0301; organism=Gossypium hirsutum; type=genetic_marker; length=131bp
ACCTTTAGTTTCTGGTCTTTTGTTATAGGGTAATATTAAGCTCTTGAATG
TTAGCATTTGTGTGTGTGTGTGTGTGGGGCTAAGTTTATATGGCAGTGAG
ATTTCAGTAGTTGAATGGACTAAACGGTAAA