CIR0242, CIR0242 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0242
AliasCIR242
Genbank IDAJ567187
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ567187
Source Typegenomic
Repeat Motif(TG)8(N)81(A)17
PCR ConditionAnnealing temperature: 55
Primer 1CIR242_F: GCATACAAACATAGGAACA
Primer 2CIR242_R: GTGGCAATTACACTTCAC
Product Length242
PolymorphismP_ CIR0242
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ567187
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
D05chromosomeD05:576465..576710 +
A05chromosomeA05:620247..620489 +
CM018219.1chromosomeCM018219.1:499215..499460 +
CM018206.1chromosomeCM018206.1:623928..624170 +
D5_05chromosomeD5_05:474057..474274 +
Chr05_CRI-A2_v1.0.a1chromosomeChr05_CRI-A2_v1.0.a1:556934..557177 +
D10_05chromosomeD10_05:60001002..60001227 -
scaffold4198.1supercontigscaffold4198.1:41310..41552 +
Dt_chr9chromosomeDt_chr9:70312202..70312447 -
scaffold4084_D05supercontigscaffold4084_D05:23235..23480 -
scaffold1247_A05supercontigscaffold1247_A05:107229..107469 -
Ghir_D05chromosomeGhir_D05:638405..638650 +
Ghir_A05chromosomeGhir_A05:700472..700714 +
D05chromosomeD05:493977..494222 +
A05chromosomeA05:685214..685453 +
D05chromosomeD05:504449..504692 +
A05chromosomeA05:682055..682297 +
D05chromosomeD05:504563..504808 +
A05chromosomeA05:843532..843769 +
scaffold2307supercontigscaffold2307:173703..173945 -
scaffold16235supercontigscaffold16235:185612..185857 -
Gbar_D05chromosomeGbar_D05:517071..517316 +
Gbar_A05chromosomeGbar_A05:562764..563005 +
D05chromosomeD05:504859..505104 +
A05chromosomeA05:630670..631106 +
CM017627.1chromosomeCM017627.1:558130..558375 +
CM017614.1chromosomeCM017614.1:686965..687211 +
CM017653.1chromosomeCM017653.1:528194..528443 +
CM017640.1chromosomeCM017640.1:676970..677209 +
CM017705.1chromosomeCM017705.1:516310..516557 +
CM017692.1chromosomeCM017692.1:671775..672020 +
D05chromosomeD05:502975..503220 +
A05chromosomeA05:705547..705788 +
Chr05chromosomeChr05:797893..798129 +
Chr05chromosomeChr05:431831..432076 +
Chr05chromosomeChr05:474282..474499 +
B_05chromosomeB_05:85400429..85400660 -
Chr_09chromosomeChr_09:410498..410723 +
Chr09chromosomeChr09:568184..568397 +
Chr09chromosomeChr09:401336..401570 +
Chr09_3469842chromosomeChr09_3469842:6822..7049 -
Chr09_6272705chromosomeChr09_6272705:3213..3447 +
E05chromosomeE05:756315..756548 +
F05chromosomeF05:536308..536546 +
Chr09chromosomeCIR0242:1..386 .
Chr09:469067..469428 +
Chr9chromosomeCIR0242:1..386 .
Chr9:479201..479562 +
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ567187AJ567187Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Guazuncho-2 x VH8-4602, BC1 (2005)AD_ch19_Dt.05N/A19CIR242View
2Guazuncho-2 x VH8-4602, consensus (2009)AD_ch19_Dt.05N/A15.52CIR242View
3Yumian-1 x T586, RIL (2006)AD_ch05_At.05N/A0CIR242View
4(YM1 x CCRI35) x (YM1 x 7235), 4WC (2012)AD_ch19_Dt.05N/A39.9CIR242View
5Yumian-1 x T586, RIL (2015)AD_ch05_At.05N/A0.7CIR242View
6Yumian-1 x 7235, RIL (2015)AD_ch05_At.05N/A38.8CIR242View
7W10 x TM-1, F2:3 (2015)AD_ch05_At.05N/A40.8CIR242View
8CCRI-35 x Yumian-1, RIL (2015)AD_ch05_At.05N/A114.6CIR242View
9AD-genome wide Reference Map (2009)AD_ch19_Dt.05N/A70cir0242View
10Yumian-1 x T586, RIL (2009)AD_ch19_Dt.05N/A81.4CIR242/220y(C19)View
11CCRI-35 x Yumian-1, RIL (2017)AD_ch05_At.05N/A4.08CIR242View
Sequence
>CIR0242 ID=CIR0242; Name=CIR0242; organism=Gossypium hirsutum; type=genetic_marker; length=242bp
GCATACAAACATAGGAACAGTGACAATATAGATATATAAATTTGTGAGTG
ATAATTGTTGAGTCATGTACACAATTATTATATATAGGAACTGATTAGAT
GCTATACTCTGTGTGTGTGTGTGTGTTGCATTATAAAAATGATATTTGAG
GTATAAAGTAATGCAAGTAATAAATCCGGAATGGATATGGTTGTAAACCA
AAGGGAAAAAAAAAAAAAAAAAGGGTGAAGTGTAATTGCCAC