Strain Report - Rat Genome Database

Name: SD- Ccdc39 em1Jgn
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Strain Registration

General

Strain: SD-Ccdc39^em1Jgn

Symbol:

SD-Ccdc39^em1Jgn

Strain:

SD-Ccdc39^em1

Substrain:

Jgn

RGD ID:

150520220

Citation ID:

RRID:RGD_150520220

Ontology ID:

RS:0005083

Alleles:

Ccdc39^em1Jgn

Previously known as:

Ccdc39^prh/prh

Type:

mutant

Source:

Cincinnati Children's Hospital Medical Center, Cincinnati, OH

Origin:

The CRISPR/Case9 system was desgined to create the progressive hydrocephalus (prh) mutation in Sprague Dawley rats. The homozygous rat carries chr2:g.120305679A>T change that creates a splice site (Ccdc39c.916+2T ) mutation in the rat Ccdc39 gene.

Genetic Status:

Homozygous

Last Known Status:

Unknown

Position

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	2	116,665,261 - 116,703,364	RGD_MAPPER_PIPELINE	mRatBN7.2
Rnor_6.0	2	120,278,605 - 120,367,829	RGD_MAPPER_PIPELINE	Rnor6.0
Rnor_5.0	2	139,933,049 - 139,971,476	RGD_MAPPER_PIPELINE	Rnor5.0
RGSC_v3.4	2	120,117,112 - 120,154,958	RGD_MAPPER_PIPELINE	RGSC3.4

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

hydrocephalus (IMP)

Ventriculomegaly (IMP)

Phenotype Annotations Click to see Annotation Detail View

Mammalian Phenotype

abnormal cerebrospinal fluid flow (IMP)

abnormal glymphatic system physiology (IMP)

dilated lateral ventricle (IMP)

dysmyelination (IMP)

hydrocephaly (IMP)

increased apoptosis (IMP)

increased macrophage cell number (IMP)

increased neutrophil cell number (IMP)

intracranial hemorrhage (IMP)

postnatal growth retardation (IMP)

premature death (IMP)

subarachnoid hemorrhage (IMP)

References

References - curated

#	Reference Title	Reference Citation
1.	Impaired neural differentiation and glymphatic CSF flow in the Ccdc39 rat model of neonatal hydrocephalus: genetic interaction with L1cam.	Emmert AS, etal., Dis Model Mech. 2019 Nov 21;12(11). pii: 12/11/dmm040972. doi: 10.1242/dmm.040972.

Region

Additional Information

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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Strain: SD-Ccdc39em1Jgn

Mammalian Phenotype

Strain: SD-Ccdc39^em1Jgn