R3hdm2 Gene Detail

Summary

• Symbol
  R3hdm2
• Name
  R3H domain containing 2
• Synonyms
  1300003K24Rik, mKIAA1002

• Feature Type
  protein coding gene
• IDs
  MGI:1919000
  NCBI Gene: 71750
• Alliance
  gene page
• Transcription Start Sites
  22 TSS

Location &
Maps

• Sequence Map
  Chr10:127216201-127335253 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 10, 74.50 cM
• Mapping Data
  2 experiments

Strain
Comparison

• SNPs within 2kb
  3212 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1919000	protein coding gene	Chr10:127216196-127335253 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0017822	protein coding gene	Chr10:130979925-131119557 (+)
A/J	MGP_AJ_G0017797	protein coding gene	Chr10:125735839-125867739 (+)
AKR/J	MGP_AKRJ_G0017760	protein coding gene	Chr10:129449950-129580059 (+)
BALB/cJ	MGP_BALBcJ_G0017761	protein coding gene	Chr10:126148471-126270306 (+)
C3H/HeJ	MGP_C3HHeJ_G0017585	protein coding gene	Chr10:129607428-129733093 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018216	protein coding gene	Chr10:135423729-135560626 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0015896	protein coding gene	Chr10:119730306-119855094 (+)
CAST/EiJ	MGP_CASTEiJ_G0017145	protein coding gene	Chr10:130258348-130389971 (+)
CBA/J	MGP_CBAJ_G0017554	protein coding gene	Chr10:140882643-141029041 (+)
DBA/2J	MGP_DBA2J_G0017660	protein coding gene	Chr10:124818380-124942484 (+)
FVB/NJ	MGP_FVBNJ_G0017655	protein coding gene	Chr10:123762715-123882320 (+)
LP/J	MGP_LPJ_G0017734	protein coding gene	Chr10:131556508-131690003 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0017683	protein coding gene	Chr10:143596012-143724778 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018256	protein coding gene	Chr10:129515040-129648375 (+)
PWK/PhJ	MGP_PWKPhJ_G0016930	protein coding gene	Chr10:125023964-125148034 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0016722	protein coding gene	Chr10:128568076-128687130 (+)
WSB/EiJ	MGP_WSBEiJ_G0017206	protein coding gene	Chr10:129743872-129874819 (+)

Homology

• Human Ortholog
  R3HDM2, R3H domain containing 2

• Vertebrate Orthologs
  2

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  R3HDM2, R3H domain containing 2
  
• Synonyms
  CAG6, PR01365
• Links
  HGNC:29167

  NCBI Gene ID: 22864

  UniProt: Q9Y2K5

  
  
• Chr Location
  12q13.3; chr12:57253762-57431141 (-)  GRCh38

---

• MGI Vertebrate Homology
  R3hdm2 stringent orthology
  1 human;1 mouse;1 rat
  
• HCOP
  vertebrate homology predictions: R3HDM2
• Gene Tree
  R3hdm2
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  9 phenotype references
  

• All Mutations and Alleles
  97
• Endonuclease-mediated
  3
• Gene trapped
  91
• Targeted
  3
• Incidental Mutations
  Mutagenetix , APF
• Find Mice (IMSR)
  89 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  3
• GO References
  3

Expression

• Assay Results
  722
• Tissues
  5
• cDNA Data
  113
• Literature Summary
  2

Images

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas
• Other Vertebrate Links
  Xenbase r3hdm2

Sequences &
Gene Models

• All Sequences
  151
• RefSeq
  60
• UniProt
  13
• CCDS
  CCDS24241.1, CCDS48717.1, CCDS48718.1, CCDS88102.1

• Ensembl
  ENSMUSG00000025404 (Evidence)
• NCBI Gene
  71750

Representative Sequences			Length	Strain/Species
genomic	71750	NCBI Gene Model | MGI Sequence Detail	119053	C57BL/6J
transcript	NM_001359243	RefSeq | MGI Sequence Detail	4366	C57BL/6
polypeptide	Q80TM6	UniProt | EBI | MGI Sequence Detail	1044	Not Applicable

Protein
Information

• UniProt
  13 Sequences
• Protein Ontology
  PR:000032012 R3H domain-containing protein 2
  (term hierarchy)
• InterPro Domains
  IPR001374 R3H domain
  IPR051937 R3H domain-containing
  IPR036867 R3H domain superfamily
  IPR024771 SUZ domain
• GlyGen
  Q80TM6 5 sites, 2 N-linked glycans (2 sites), 1 O-linked glycan (2 sites)

Molecular
Reagents

• All nucleic 113

  cDNA 113

  
  

  Microarray probesets 4

Other
Accession IDs

MGI:2143757

References

• Summaries
  All 34

  Developmental Gene Expression 2

  Gene Ontology 3

  Phenotypes 9
• Earliest
  J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
• Latest
  J:313619 Bedogni F, et al., Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Front Mol Neurosci. 2021;14:686034

TSS for R3hdm2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr96198	Chr10:127216460-127216571 (+)	315 bp
Tssr96199	Chr10:127216684-127216747 (+)	515 bp
Tssr96200	Chr10:127226178-127226205 (+)	9,991 bp
Tssr96201	Chr10:127256194-127256202 (+)	39,997 bp
Tssr96202	Chr10:127256203-127256217 (+)	40,009 bp
Tssr96203	Chr10:127256222-127256241 (+)	40,031 bp
Tssr96204	Chr10:127256253-127256264 (+)	40,058 bp
Tssr96205	Chr10:127256689-127256709 (+)	40,498 bp
Tssr96206	Chr10:127256754-127256785 (+)	40,569 bp
Tssr96207	Chr10:127257049-127257072 (+)	40,860 bp
Tssr96208	Chr10:127257077-127257104 (+)	40,890 bp
Tssr96209	Chr10:127288590-127288612 (+)	72,400 bp
Tssr96210	Chr10:127307644-127307664 (+)	91,453 bp
Tssr96211	Chr10:127307678-127307688 (+)	91,482 bp
Tssr96212	Chr10:127307697-127307706 (+)	91,501 bp
Tssr96213	Chr10:127312390-127312401 (+)	96,195 bp
Tssr96214	Chr10:127312443-127312462 (+)	96,252 bp
Tssr96215	Chr10:127317516-127317541 (+)	101,328 bp
Tssr96216	Chr10:127317559-127317568 (+)	101,363 bp
Tssr96217	Chr10:127323680-127323700 (+)	107,489 bp
Tssr96218	Chr10:127329050-127329077 (+)	112,863 bp
Tssr96219	Chr10:127334722-127334757 (+)	118,539 bp