HAU2835, HAU2835 (genetic_marker) gossypium spp

Marker Overview
NameHAU2835
Genbank IDES798860
TypeSSR
SpeciesGossypium spp.
Source SequenceES798860.1
Source TypeEST
Repeat Motif(CTCTCC)7
PCR ConditionAnnealing temperature: 56.1
Primer 1HAU2835_F: TCTTTGGAGCTCGCCTCTGT
Primer 2HAU2835_R: TGACCCACAAGTGCATCCCG
Product Length300
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankES798860
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D12chromosomeD12:5939727..5940082 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
A12chromosomeA12:4884344..4884721 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018226.1chromosomeCM018226.1:5859545..5859900 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018213.1chromosomeCM018213.1:4630675..4631058 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_12chromosomeD5_12:51614819..51615179 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
KI_12chromosomeKI_12:14142383..14142759 +Gossypioides kirkii genome ISU_v3n/a
tig00015610_CRI-A2_v1.0.a1chromosometig00015610_CRI-A2_v1.0.a1:527508..527891 -Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
CM016625.1chromosomeCM016625.1:22578141..22578498 -Gossypium australe (G2) genome CRI_v1.1n/a
Dt_chr8chromosomeDt_chr8:1951227..1951582 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
At_chr8chromosomeAt_chr8:45859551..45859928 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D12chromosomeD12:5913736..5914091 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
A12chromosomeA12:4654773..4655126 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D12chromosomeGhir_D12:5980171..5980526 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_A12chromosomeGhir_A12:4710042..4710417 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D12chromosomeD12:5845338..5845693 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A12chromosomeA12:4510570..4510947 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D12chromosomeD12:5986478..5986833 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A12chromosomeA12:4767341..4767718 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D12chromosomeD12:5943099..5943454 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
A12chromosomeA12:4736688..4737065 -Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
Dt12chromosomeDt12:6294978..6295333 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt12chromosomeDt12:6290867..6291222 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
At12chromosomeAt12:5357091..5357474 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold20514supercontigscaffold20514:144518..144873 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold20514supercontigscaffold20514:140407..140762 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold3115supercontigscaffold3115:197147..197530 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D12chromosomeGbar_D12:5789124..5789479 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_A12chromosomeGbar_A12:4744864..4745247 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D12chromosomeD12:5778260..5778615 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
A12chromosomeA12:4566738..4567127 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017634.1chromosomeCM017634.1:5795070..5795449 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017621.1chromosomeCM017621.1:4469841..4470212 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017660.1chromosomeCM017660.1:5833290..5833657 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017647.1chromosomeCM017647.1:4816766..4817125 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017712.1chromosomeCM017712.1:5880965..5881320 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017699.1chromosomeCM017699.1:4425975..4426352 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
D12chromosomeD12:6130670..6131025 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
A12chromosomeA12:4765607..4765984 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr12chromosomeChr12:7650922..7651300 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr12chromosomeChr12:7580929..7581312 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr12chromosomeChr12:5795310..5795671 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_12chromosomeB_12:8611699..8612058 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr08chromosomeChr08:5718189..5718544 +Gossypium thurberi (D1-5) genome CRI_v1n/a
chr08chromosomechr08:5608701..5609069 +Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_08chromosomeChr_08:5482277..5482639 +Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr08chromosomeChr08:5739917..5740278 +Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr08chromosomeChr08:5073061..5073416 +Gossypium aridum (D4) genome ISU_v1n/a
Chr08chromosomeChr08:3805387..3805766 +Gossypium gossypioides (D6) genome ISU_v1n/a
Chr08chromosomeChr08:4880094..4880455 +Gossypium lobatum (D7) genome ISU_v1n/a
E12chromosomeE12:8390273..8390641 +Gossypium stocksii (E1) genome NSF_v1n/a
F12chromosomeF12:6543501..6543858 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr12chromosomeChr12:148097061..148097412 -Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Relationships

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

Feature NameUnique NameSpeciesType
ES798860.1ES798860.1Gossypium spp.sequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch12_At.12N/A36.58HAU2835View
2Emian-22 x 3-79, BC1 (2015)AD_ch12_At.12N/A189.7HAU2835View
Sequence
>HAU2835 ID=HAU2835; Name=HAU2835; organism=Gossypium spp.; type=genetic_marker; length=300bp
TCTTTGGAGCTCGCCTCTGTATTCGATTCTCTCCCTCTCCCTCTCCCTCT
CCCTCTCCCTCTCCCTCTCCGGTGTTGTTATCGGTGGACGGACGACGATG
GCGTTTGCCAAATCTTCATCTTATATCTTGCCATTGGTTTTCGCTTTATT
TACGCTTCTGTCCTCTTCCAACGCCTTGGTTTCGACTCCTCACCCAAAAG
CCATTGCTGATTTGATAGAAGGAATTGTGAAGTTATTGGGATTCCAAGCC
GATGATGTTGAGATATCAGGGTTCGATTCGCGGGATGCACTTGTGGGTCA