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Maize B73 RefGen_v2: 495.6 kbp from Chr1:34,400..530,000

The region shown in the Genome Browser window below lies at approximately (Unknown) cM on the ISU Integrated IBM 2009 genetic map for chromosome ?. This region (from to bp) represents cM.

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Markers used to generate the map reported in Liu et al. 2009 were used to estimate cM per bp. The full map is also available at MaizeGDB. For this calculation, markers were ignored in regions where RefGen_v2 and the genetic map were not collinear. The full dataset used for this calculation is available here. Markers removed from the original Liu et al. dataset are available as a list here

Map positions reported are the centimorgan coordinate for the left side of the genome browser window shown below.

Regions at chromosome tips are reported as 0 cM. Regions smaller than 1 cM are reported as <1 cM. If the reported region is <1 cM, zoom out or check the "Segments of known genetic distance" track for more precise estimates.

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Landmark or Region : Examples : Chr1:34,400..530,000, Chr2:2,000,000..4,000,000, Chr3:194343000..194350000, UNMAPPED:34,400..530,000, Centromere1, GRMZM2G100969, GRMZM5G859979, GRMZM5G816453, MAGIv4.0_76504, AC177838.2, GRMZM2G104572_T01, GRMZM2G089944, Chr1:2993000..3044000, mu-illumina_11900, Mt:59000..86000, Cp:90000..130000, MIR2118e.
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Overview

Region

Details

B73 RefGen_v2 [from MGSC and AGI]

Gaps in the B73 RefGen_v2 [from MGSC and AGI]

MAGI [from the Schnable Lab]

PlantGDB Unique Transcripts (PUTs)

ESTs [from PlantGDB]

cDNA [from PlantGDB]

Community Annotations via DAS [ZmGDB]

B73 RefGen_v2 Gene Models: Filtered Gene Set (green) and Working Gene Set (yellow) [from MaizeSequence.org]

B73 RefGen_v2 Gene Models: Quality (ZmGDB_v175 Gene Models)

Bins

ISU Integrated IBM2009 Markers [from the Schnable Lab]

GSS_PlantGDB

Heritable Mu Insertions [from the Mu-Illumina Group]

UniformMu (Release 4.6) [from the UniformMu Group]

Ac/Ds [Brutnell and Vollbrecht, via PlantGDB]

Agilent 4x44K maize microarray probes [from the Walbot Lab]

Microarray Probes at PLEXdb [aligned by PlantGDB]

Centromere [from Jiang/Presting]

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Tracks

anti-CENH3 ChIP [from Jiang/Presting] [?]	Centromere [from Jiang/Presting] [?]	GSS_PlantGDB [?]
B73 RefGen_v2 [from MGSC and AGI] [?]	FPC Contig [?]	Nucleosome Occupancy Likelihood (FSU HsA375.ZmB73rg2) [from Bass & Dennis, FSU] [?]
Bins [?]	Gaps in the B73 RefGen_v2 [from MGSC and AGI] [?]	Reconstructed Chromosomes from the Maize Tetraploidy [from J. Schnable and M. Freeling] [?]

HapMap1 [from Panzea] [?]	Mo17 SNPs and Indels [from JGI] [?]
ISU SNPs mapped on 291 IBM RILs [Liu et al. 2010, Genetics] [?]	Palomero Toluqueño contigs [CINVESTAV-Langebio] [?]

Affymetrix Maize100WT Probe Sets [from the Wise group/PLEXdb] [?]	ESTs [from PlantGDB] [?]	Microarray Probes at PLEXdb [aligned by PlantGDB] [?]
Affymetrix Maize100WT Probes [from the Wise group/PLEXdb] [?]	Genome-wide Atlas Expression Across Tissues by Probe [PLEXdb/MaizeGDB Collaboration] [?]	miRNA [from mirBASE] [?]
Affymetrix Maize100WT Source Sequence [from the Wise group/PLEXdb; assembly B73 RefGen_v1 and MaizeSequence.org annotations 4.53a] [?]	Genome-wide Atlas Maximum Mean Normalized Expression by Probe [PLEXdb/MaizeGDB Collaboration] [?]	PlantGDB Unique Transcripts (PUTs) [?]
Agilent 4x44K maize microarray probes [from the Walbot Lab] [?]	Genome-wide Expression Atlas [NimbleGen from the Kaeppler Group, PLEXdb/MaizeGDB Collaboration] [?]	Shoot Apical Meristem at Six Stages [from the Scanlon lab - SAM Group] [?]
Anther Stages: 1mm, 1.5m, 2mm, pollen [?]	Genome-wide Expression Atlas Coefficient of Variation by Probe [PLEXdb/MaizeGDB Collaboration] [?]
cDNA [from PlantGDB] [?]	IBM SAM eQTL Data [from the Muehlbauer lab - SAM Group] [?]

B73 RefGen_v2 Gene Models: Filtered Gene Set (green) and Working Gene Set (yellow) [from MaizeSequence.org] [?]	Chloroplast genes (strain Inrakorn) [?]	MAGI [from the Schnable Lab] [?]
B73 RefGen_v2 Gene Models: Quality (ZmGDB_v175 Gene Models) [?]	Community Annotations via DAS [ZmGDB] [?]	Mitochondrial genes (strain NB) [?]

Ac/Ds [Brutnell and Vollbrecht, via PlantGDB] [?]	Heritable Mu Insertions [from the Mu-Illumina Group] [?]
Ac/Ds [from the Dooner Lab] [?]	UniformMu (Release 4.6) [from the UniformMu Group] [?]

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