IER2

immediate early response 2

Basic information

Region (hg38): 19:13150411-13156981

Links

ENSG00000160888 ∙ NCBI:9592 ∙ OMIM:620036 ∙ HGNC:28871 ∙ Uniprot:Q9BTL4 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

No genCC data.

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the IER2 gene.

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the IER2 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous						0
missense			15		1	16
nonsense						0
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)						0
splice region						0
non coding						0
Total	0	0	15	0	1

Variants in IER2

This is a list of pathogenic ClinVar variants found in the IER2 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
19-13153221-C-T		not specified	Uncertain significance (Dec 14, 2022)
19-13153304-A-C		not specified	Uncertain significance (Sep 07, 2022)
19-13153316-C-G		not specified	Uncertain significance (May 12, 2024)
19-13153422-C-T		not specified	Uncertain significance (Aug 01, 2023)
19-13153481-C-G		not specified	Uncertain significance (Dec 16, 2022)
19-13153485-A-G		not specified	Uncertain significance (Jan 29, 2024)
19-13153491-C-T		not specified	Uncertain significance (Oct 26, 2021)
19-13153496-G-A		not specified	Uncertain significance (Jun 16, 2024)
19-13153506-C-A		not specified	Uncertain significance (Jan 04, 2022)
19-13153506-C-T		not specified	Uncertain significance (Feb 13, 2024)
19-13153553-C-T		not specified	Uncertain significance (Dec 19, 2023)
19-13153601-A-C		not specified	Uncertain significance (Nov 30, 2021)
19-13153649-G-A		not specified	Uncertain significance (Nov 22, 2021)
19-13153660-T-G		not specified	Uncertain significance (Aug 13, 2021)
19-13153676-C-G		not specified	Uncertain significance (Nov 18, 2023)
19-13153686-C-T		not specified	Uncertain significance (May 14, 2024)
19-13153692-G-A		not specified	Uncertain significance (Apr 15, 2024)
19-13153757-G-A			Benign (Jun 26, 2018)
19-13153809-C-T		not specified	Uncertain significance (Dec 15, 2023)
19-13153823-C-T		not specified	Uncertain significance (Feb 16, 2023)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
IER2	protein_coding	protein_coding	ENST00000588173	1	4494

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.768	0.225	0	0	0	0	0.00

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	-0.531	134	118	1.14	0.00000536	1375
Missense in Polyphen		43	47.319	0.90872		587
Synonymous	-2.63	79	54.3	1.45	0.00000253	484
Loss of Function	2.04	0	4.83	0.00	2.18e-7	57

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00	0.00
Middle Eastern	0.00	0.00
South Asian	0.00	0.00
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: DNA-binding protein that seems to act as a transcription factor (PubMed:19584537). Involved in the regulation of neuronal differentiation, acts upon JNK-signaling pathway activation and plays a role in neurite outgrowth in hippocampal cells (By similarity). May mediate with FIBP FGF-signaling in the establishment of laterality in the embryo (By similarity). Promotes cell motility, seems to stimulate tumor metastasis (PubMed:22120713). {ECO:0000250|UniProtKB:B7SXM5, ECO:0000250|UniProtKB:Q6P7D3, ECO:0000269|PubMed:19584537, ECO:0000269|PubMed:22120713}.

Recessive Scores

• pRec: 0.131

Haploinsufficiency Scores

• pHI: 0.0761
• hipred: N
• hipred_score: 0.338

Essentials

• essential_gene_CRISPR: N
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: N
• gene_indispensability_pred: E
• gene_indispensability_score: 0.984

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Ier2

Zebrafish Information Network

• Gene name: ier2a
• Affected structure: whole organism
• Phenotype tag: abnormal
• Phenotype quality: decreased length

Gene ontology

• Biological process: neuron differentiation;positive regulation of transcription by RNA polymerase II;cell motility;response to fibroblast growth factor
• Cellular component: nucleus;nucleoplasm;cytoplasm
• Molecular function: RNA polymerase II regulatory region sequence-specific DNA binding;DNA-binding transcription activator activity, RNA polymerase II-specific;DNA binding