Mtdh metadherin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Mtdhprovided by RGD
Official Full Name: metadherinprovided by RGD
Primary source: RGD:620992
See related: EnsemblRapid:ENSRNOG00000006870 AllianceGenome:RGD:620992
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Lyric
Summary: Predicted to enable NF-kappaB binding activity; double-stranded RNA binding activity; and transcription coactivator activity. Involved in bicellular tight junction assembly. Located in several cellular components, including apical plasma membrane; bicellular tight junction; and intercellular canaliculus. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human MTDH (metadherin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 280.8), Spleen (RPKM 147.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q22

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (67192592..67250819)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (65306464..65365647)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (72771018..72830599)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Microparticles from Hyperphosphatemia-Stimulated Endothelial Cells Promote Vascular Calcification Through Astrocyte-Elevated Gene-1.
Title: Microparticles from Hyperphosphatemia-Stimulated Endothelial Cells Promote Vascular Calcification Through Astrocyte-Elevated Gene-1.
AEG-1 was expressed mainly in Schwann cells of the distal sciatic nerve segment from injury. Interference of AEG-1 inhibited both proliferation and migration of Schwann cells.
Title: Upregulation of AEG-1 Involves in Schwann Cell Proliferation and Migration After Sciatic Nerve Crush.

Submit: New GeneRIF Correction

General gene information

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Markers

RH131760 (e-PCR)
- UniSTS:215043

RH140727 (e-PCR)
- UniSTS:222793

Mtdh (e-PCR), detects polymorphism
- UniSTS:526938

RH124812 (e-PCR)
- UniSTS:161634

D8Bwg1112e (e-PCR), detects polymorphism
- UniSTS:142713

RH143355 (e-PCR)
- UniSTS:232602

RH135870 (e-PCR)
- UniSTS:209868

RH125179 (e-PCR)
- UniSTS:162001

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables NF-kappaB binding	IBA Inferred from Biological aspect of Ancestor more info
enables NF-kappaB binding	IEA Inferred from Electronic Annotation more info
enables NF-kappaB binding	ISO Inferred from Sequence Orthology more info
enables NF-kappaB binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II-specific DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables double-stranded RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in bicellular tight junction assembly	IEP Inferred from Expression Pattern more info	PubMed
involved_in lipopolysaccharide-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in lipopolysaccharide-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of NF-kappaB transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NF-kappaB transcription factor activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in bicellular tight junction	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in fibrillar center	IEA Inferred from Electronic Annotation more info
located_in fibrillar center	ISO Inferred from Sequence Orthology more info
located_in intercellular canaliculus	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nuclear body	IEA Inferred from Electronic Annotation more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: protein LYRIC

Names: LYRIC; lysine-rich CEACAM1 co-isolated protein; metastasis adhesion protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_133398.2 → NP_596889.1 protein LYRIC

See identical proteins and their annotated locations for NP_596889.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

Q9Z1W6

UniProtKB/TrEMBL

A0A8L2UIC6

Related

ENSRNOP00000077252.1, ENSRNOT00000096827.2

Conserved Domains (1) summary

pfam15686
Location:6 → 421

LYRIC; Lysine-rich CEACAM1 co-isolated protein family

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086025.1 Reference GRCr8

Range

67192592..67250819

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006241520.5 → XP_006241582.1 protein LYRIC isoform X1

UniProtKB/TrEMBL

A0A8I5Y7K9, A6HQZ2

Related

ENSRNOP00000009989.4, ENSRNOT00000009989.5

Conserved Domains (1) summary

pfam15686
Location:133 → 578

LYRIC; Lysine-rich CEACAM1 co-isolated protein family
XM_006241524.4 → XP_006241586.1 protein LYRIC isoform X4

UniProtKB/TrEMBL

A0A8I5Y7K9, A0A8I6AJK9, A6HQZ2

Related

ENSRNOP00000088806.1, ENSRNOT00000105848.2

Conserved Domains (1) summary

pfam15686
Location:133 → 515

LYRIC; Lysine-rich CEACAM1 co-isolated protein family
XM_006241521.4 → XP_006241583.1 protein LYRIC isoform X2

UniProtKB/TrEMBL

A0A8I5Y7K9, A6HQZ2

Conserved Domains (1) summary

pfam15686
Location:133 → 556

LYRIC; Lysine-rich CEACAM1 co-isolated protein family
XM_006241523.4 → XP_006241585.1 protein LYRIC isoform X3

UniProtKB/TrEMBL

A0A8I5Y7K9, A0A8I5ZLQ8, A6HQZ2

Related

ENSRNOP00000078672.1, ENSRNOT00000108860.2

Conserved Domains (1) summary

pfam15686
Location:133 → 526

LYRIC; Lysine-rich CEACAM1 co-isolated protein family
XM_006241525.5 → XP_006241587.1 protein LYRIC isoform X5

UniProtKB/TrEMBL

A0A8I5Y7K9, A6HQZ2

Conserved Domains (1) summary

pfam15686
Location:133 → 493

LYRIC; Lysine-rich CEACAM1 co-isolated protein family