HAU2856, HAU2856 (genetic_marker) gossypium spp

Marker Overview
NameHAU2856
Genbank IDES802557
TypeSSR
SpeciesGossypium spp.
Source TypeEST
Repeat Motif(CCTAAC)3
PCR ConditionAnnealing temperature: 56.7
Primer 1HAU2856_F: GGTGTGCTTCCCAATCGTGC
Primer 2HAU2856_R: GGGTGACAAACACGCAAGGC
Product Length234
Publication[view all]
CommentPrimer data obtained in 2012
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankES802557
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
A13chromosomeA13:93469005..93469237 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
D13chromosomeD13:54612852..54613084 -Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018214.1chromosomeCM018214.1:97480914..97481152 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
CM018227.1chromosomeCM018227.1:50503038..50503264 -Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_13chromosomeD5_13:49446468..49446706 -Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
Chr13_CRI-A2_v1.0.a1chromosomeChr13_CRI-A2_v1.0.a1:112056679..112056911 +Gossypium arboreum (A2) 'SXY1' genome CRI-updated_v1n/a
D10_13chromosomeD10_13:51353480..51353711 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr13chromosomeDt_chr13:18805908..18806140 +Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
A13chromosomeA13:69863774..69864006 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
D13chromosomeD13:50372913..50373145 -Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_A13chromosomeGhir_A13:97160372..97160604 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
Ghir_D13chromosomeGhir_D13:53545002..53545234 -Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
A13chromosomeA13:99795284..99795516 +Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
D13chromosomeD13:54628558..54628790 -Gossypium hirsutum (AD1) 'TM-1' genome ZJU-improved_v2.1_a1n/a
A13chromosomeA13:98049305..98049537 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
D13chromosomeD13:53710970..53711202 -Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
A13chromosomeA13:96104921..96105153 +Gossypium hirsutum (AD1) 'ZM24' genome CRI_v1n/a
At13chromosomeAt13:75830690..75830928 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Dt13chromosomeDt13:52550997..52551223 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold11139supercontigscaffold11139:123213..123451 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
scaffold13076supercontigscaffold13076:8996..9222 -Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_A13chromosomeGbar_A13:98417943..98418181 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
Gbar_D13chromosomeGbar_D13:50217502..50217728 -Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
A13chromosomeA13:101843248..101843486 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
D13chromosomeD13:51535121..51535347 -Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017622.1chromosomeCM017622.1:99348840..99349078 +Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017635.1chromosomeCM017635.1:51251926..51252158 -Gossypium tomentosum (AD3) genome HGS_v1.1n/a
CM017648.1chromosomeCM017648.1:104464503..104464735 +Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017661.1chromosomeCM017661.1:54458921..54459153 -Gossypium mustelinum (AD4) genome JGI_v1.1n/a
CM017700.1chromosomeCM017700.1:99720939..99721177 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017713.1chromosomeCM017713.1:51141219..51141451 -Gossypium darwinii (AD5) genome HGS_v1.1n/a
A13chromosomeA13:100454168..100454400 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
D13chromosomeD13:54741847..54742079 -Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr13chromosomeChr13:105438793..105439025 +Gossypium herbaceum (A1) 'Mutema' genome WHU_v1n/a
Chr13chromosomeChr13:110272617..110272849 +Gossypium arboreum (A2) 'SXY1' genome WHU-updated v1n/a
Chr13chromosomeChr13:49438861..49439099 -Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
B_13chromosomeB_13:13097465..13097691 +Gossypium anomalum (B1) genome NSF_v1n/a
Chr13chromosomeChr13:50712712..50712944 -Gossypium thurberi (D1-5) genome CRI_v1n/a
chr13chromosomechr13:37195383..37195615 -Gossypium armourianum (D2-1) genome ISU_v1n/a
Chr_13chromosomeChr_13:35455299..35455610 -Gossypium harknessii (D2-2) genome ISU_v1n/a
Chr13chromosomeChr13:53224518..53224750 -Gossypium davidsonii (D3d-8) genome CRI_v1n/a
Chr13chromosomeChr13:34585053..34585279 -Gossypium aridum (D4) genome ISU_v1n/a
Chr13chromosomeChr13:26962001..26962227 -Gossypium gossypioides (D6) genome ISU_v1n/a
E13chromosomeE13:101944495..101944715 -Gossypium stocksii (E1) genome NSF_v1n/a
Chr13chromosomeChr13:17857452..17857678 +Gossypium rotundifolium (K2) 'Grot K201' genome HAU_v1n/a
Chr13chromosomeHAU2856:1..234 .
Chr13:48352719..48352957 -		n/a
Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Emian-22 x 3-79, BC1 (2011)AD_ch13_At.13N/A89.4HAU2856aView
2Emian-22 x 3-79, BC1 (2011)AD_ch18_Dt.13N/A59.23HAU2856bView
3Yumian-1 x T586, RIL (2015)AD_ch13_At.13N/A116.8HAU2856View
4Yumian-1 x 7235, RIL (2015)AD_ch13_At.13N/A0HAU2856View
5DH962 X Ji Mian 5, F2 (2015)AD_ch13_At.13N/A73.6HAU2856View
6DH962 x Ji Mian 5, RIL (2015)AD_ch13_At.13N/A48.4HAU2856View
Sequence
>HAU2856 ID=HAU2856; Name=HAU2856; organism=Gossypium spp.; type=genetic_marker; length=234bp
GGTGTGCTTCCCAATCGTGCTATTAACATCCACCCAAACCCTGGGGTCAA
CCCCCAATCCTAACCCTAACCCTAACCCTAATTCCACTCCTAATTCACAA
CAACAGCAACAGCCCCCACAATCACAGCAACAGCAACAGCAGCGGCAACA
ACAGCAGCAGCAGAAGCAGATGCGGCCGTTGAATCAAGCTGAACTTCGGA
TGGCTTATCAGGATGCCTTGCGTGTTTGTCACCC