CIR0016, CIR0016 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCIR0016
AliasCIR16
CIR016
Genbank IDAJ566965
TypeSSR
SpeciesGossypium hirsutum
GermplasmGuazuncho-2
Source SequenceAJ566965
Source Typegenomic
Repeat Motif(T)9(TG)8
PCR ConditionAnnealing temperature: 51
Primer 1CIR016_F: CCATACATCACAACTGAAA
Primer 2CIR016_R: CCCAACTTGTCATCTCTAC
Product Length298
Publication[view all]
CommentPrimer data obtained in 2005
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankAJ566965
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D10chromosomeD10:50991894..50992174 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018224.1chromosomeCM018224.1:48986498..48986781 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D10_10chromosomeD10_10:16469073..16469341 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10chromosomeD10:48530926..48531206 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D10chromosomeGhir_D10:51071301..51071581 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D10chromosomeD10:51246737..51247017 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D10chromosomeD10:49777829..49778109 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D10chromosomeD10:48076159..48076439 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
scaffold3483supercontigscaffold3483:181122..181405 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D10chromosomeGbar_D10:48717360..48717643 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D10chromosomeD10:49973199..49973483 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017632.1chromosomeCM017632.1:48660447..48660728 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017658.1chromosomeCM017658.1:50803782..50804060 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
D10chromosomeD10:51124609..51124889 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr10chromosomeChr10:46306269..46306552 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr11chromosomeChr11:47818842..47819120 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr11chromosomeChr11:49126366..49126640 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr11chromosomeChr11:34191598..34191964 +Gossypium lobatum (D7) genome ISU_v1n/a
Germplasm
Stock NameType
Guazuncho-2accession
Relationships

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

Feature NameUnique NameSpeciesType
AJ566965AJ566965Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1TM-1 x 3-79, RIL (2012)AD_ch10_At.10N/A55.23CIR016View
2TM-1 x 3-79, RIL (2014)AD_ch10_At.10N/A59CIR016View
3TM-1 x 3-79, RIL (2012.v3)AD_ch10_At.10N/A59CIR016View
Sequence
>CIR0016 ID=CIR0016; Name=CIR0016; organism=Gossypium hirsutum; type=genetic_marker; length=298bp
CCATACATCACAACTGAAAAGAGAAAGAAAAGGAGTCCATGACTCAACAA
CTTTGAATAAATCAAACAAATAAATATCCCTAAAGAAACGTGATTTATTA
TCCAAACAACCTAAAACAGATTATCAAATCCTAACAAAAGTTAAATATTT
AATCTATGTTTTCCAATTGAATCTTTTTAGTCGCTATCTTTTTTGATTTC
CAAATTTTACTCTTAATGTAAATAACACTCGTTAAATCTATTAACTAGTT
TTTTTTTGTGTGTGTGTGTGTGGTAATAAGTAGAGATGACAAGTTGGG