Bss120 QTL Report (Rattus norvegicus)

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QTL Registration

General

QTL: Bss120 (Bone structure and strength QTL 120) Rattus norvegicus

Symbol:

Bss120

Name:

Bone structure and strength QTL 120

RGD ID:

11528636

Trait:

femur morphology trait (VT:0000559)

Measurement Type:

femoral neck width (CMO:0001695)

LOD Score:

8.55

P Value:

2.7E-9

Variance:

Not Available

Position

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	81,940,459 - 82,621,764	RGD_MAPPER_PIPELINE	Rnor6.0
Rnor_5.0	17	83,682,542 - 84,358,722	RGD_MAPPER_PIPELINE	Rnor5.0
RGSC_v3.4	17	88,999,875 - 89,799,839	RGD_MAPPER_PIPELINE	RGSC3.4

Cross Type:

Not Available

Strains Crossed:

NAft:HS

Annotation Click to see Annotation Detail View

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

abnormal femur morphology (IAGP)

Experimental Data Annotations Click to see Annotation Detail View

Clinical Measurement

femoral neck width (IDA)

Experimental Condition

control condition (IDA)

Measurement Method

ex vivo digital caliper method (IDA)

Vertebrate Trait

femur morphology trait (IDA)

Rat Strain

NAft:HS (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Fine mapping of bone structure and strength QTLs in heterogeneous stock rat.	Alam I, etal., Bone. 2015 Dec;81:417-26. doi: 10.1016/j.bone.2015.08.013. Epub 2015 Aug 19.

Region

Markers in Region

The following Markers overlap with this region.

RGD ID

Symbol

Expected Size

Chr

Start

Stop

Species

Match

Position Markers

Flank 1: (rs197277061)

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	81,940,459 - 81,940,459	RGD
Rnor_5.0	17	83,682,542 - 83,682,542	RGD
RGSC_v3.4	17	88,999,875 - 88,999,875	RGD

Peak: (rs198863294)

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	10	33,950,063 - 33,950,063	RGD
Rnor_5.0	10	33,752,887 - 33,752,887	RGD
RGSC_v3.4	17	89,388,214 - 89,388,214	RGD

Flank 2: (rs197861804)

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	82,621,764 - 82,621,764	RGD
Rnor_5.0	17	84,358,722 - 84,358,722	RGD
RGSC_v3.4	17	89,799,839 - 89,799,839	RGD

Additional Information

RGD Curation Notes

Note Type	Note	Reference
qtl_general	number of animals used: 1524 HS rats (728 male, 796 female) were used.	11528619
qtl_general	measurement method: Rats on a standard diet were euthanized at 17 to 20 weeks of age, and left femurs were measured using digital calipers (Mitutoyo, Aurora, IL).	11528619

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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QTL: Bss120 (Bone structure and strength QTL 120) Rattus norvegicus

Mammalian Phenotype