CD22 CD22 molecule [Homo sapiens (human)] - Gene

Summary

Official Symbol: CD22provided by HGNC
Official Full Name: CD22 moleculeprovided by HGNC
Primary source: HGNC:HGNC:1643
See related: Ensembl:ENSG00000012124 MIM:107266; AllianceGenome:HGNC:1643
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: SIGLEC2; SIGLEC-2
Summary: Predicted to enable CD4 receptor binding activity; protein phosphatase binding activity; and sialic acid binding activity. Involved in B cell activation; negative regulation of B cell receptor signaling pathway; and regulation of endocytosis. Located in early endosome and recycling endosome. Implicated in diffuse large B-cell lymphoma. [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in lymph node (RPKM 101.0), ovary (RPKM 64.7) and 2 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19q13.12

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (35329187..35347361)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (37873914..37892093)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (35820090..35838264)

Chromosome 19 - NC_000019.10 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: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

B-cell immune dysregulation with low soluble CD22 levels in refractory seronegative myasthenia gravis.
Title: B-cell immune dysregulation with low soluble CD22 levels in refractory seronegative myasthenia gravis.
Immunotherapy-resistant acute lymphoblastic leukemia cells exhibit reduced CD19 and CD22 expression and BTK pathway dependency.
Title: Immunotherapy-resistant acute lymphoblastic leukemia cells exhibit reduced CD19 and CD22 expression and BTK pathway dependency.
Deciphering prognostic value of CD22 and its contribution to suppression of proinflammatory cytokines production in patients with IgA nephropathy.
Title: Deciphering prognostic value of CD22 and its contribution to suppression of proinflammatory cytokines production in patients with IgA nephropathy.
Associations of plasma soluble CD22 levels with brain amyloid burden and cognitive decline in Alzheimer's disease.
Title: Associations of plasma soluble CD22 levels with brain amyloid burden and cognitive decline in Alzheimer's disease.
CAR T cells with dual targeting of CD19 and CD22 in pediatric and young adult patients with relapsed or refractory B cell acute lymphoblastic leukemia: a phase 1 trial.
Title: CAR T cells with dual targeting of CD19 and CD22 in pediatric and young adult patients with relapsed or refractory B cell acute lymphoblastic leukemia: a phase 1 trial.
Human CD22-Transgenic, Primary Murine Lymphoma Challenges Immunotherapies in Organ-Specific Tumor Microenvironments.
Title: Human CD22-Transgenic, Primary Murine Lymphoma Challenges Immunotherapies in Organ-Specific Tumor Microenvironments.
The Protein Tyrosine Phosphatase SHP-1 (PTPN6) but Not CD45 (PTPRC) Is Essential for the Ligand-Mediated Regulation of CD22 in BCR-Ligated B Cells.
Title: The Protein Tyrosine Phosphatase SHP-1 (PTPN6) but Not CD45 (PTPRC) Is Essential for the Ligand-Mediated Regulation of CD22 in BCR-Ligated B Cells.
Glycoengineering of NK Cells with Glycan Ligands of CD22 and Selectins for B-Cell Lymphoma Therapy.
Title: Glycoengineering of NK Cells with Glycan Ligands of CD22 and Selectins for B-Cell Lymphoma Therapy.
Inotuzumab ozogamicin resistance associated with a novel CD22 truncating mutation in a case of B-acute lymphoblastic leukaemia.
Title: Inotuzumab ozogamicin resistance associated with a novel CD22 truncating mutation in a case of B-acute lymphoblastic leukaemia.
Humanized CD22 transgenic mouse model for in vivo analysis of anti-CD22-based immunotherapy.
Title: Humanized CD22 transgenic mouse model for in vivo analysis of anti-CD22-based immunotherapy.

Submit: New GeneRIF Correction See all GeneRIFs (53)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Protein interactions

Protein	Gene	Interaction	Pubs
Nef	nef	B lymphocytes exposed to supernatants from HIV-1 Nef-expressing macrophages have upregulated expression of receptors CD22, CD54, and CD58	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH18118 (e-PCR)
- UniSTS:34167

L17877 (e-PCR)
- UniSTS:61334

G15883 (e-PCR)
- UniSTS:34464

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables CD4 receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables CD4 receptor binding	ISS Inferred from Sequence or Structural Similarity more info
enables IgM binding	TAS Traceable Author Statement more info	PubMed
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein phosphatase binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein phosphatase binding	TAS Traceable Author Statement more info	PubMed
enables sialic acid binding	IBA Inferred from Biological aspect of Ancestor more info
enables sialic acid binding	ISS Inferred from Sequence or Structural Similarity more info
enables sialic acid binding	TAS Traceable Author Statement more info	PubMed
enables signaling receptor binding	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in B cell activation	IBA Inferred from Biological aspect of Ancestor more info
involved_in B cell activation	IDA Inferred from Direct Assay more info	PubMed
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of B cell receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of B cell receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of B cell receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of B cell receptor signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in negative regulation of calcium-mediated signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of immunoglobulin production	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of B cell proliferation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of B cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of endocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of immune response	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	TAS Traceable Author Statement more info	PubMed
is_active_in early endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular exosome	HDA more info	PubMed
located_in membrane	NAS Non-traceable Author Statement more info	PubMed
located_in neuronal cell body membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	TAS Traceable Author Statement more info	PubMed
is_active_in recycling endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in recycling endosome	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: B-cell receptor CD22

Names: B-lymphocyte cell adhesion molecule; BL-CAM; CD22 antigen; T-cell surface antigen Leu-14; sialic acid-binding Ig-like lectin 2

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_001185099.2 → NP_001172028.1 B-cell receptor CD22 isoform 2 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

AK225625, AK225694, X59350

Consensus CDS

CCDS54248.1

UniProtKB/Swiss-Prot

P20273

Related

ENSP00000442279.1, ENST00000536635.6

Conserved Domains (5) summary

smart00408
Location:257 → 316

IGc2; Immunoglobulin C-2 Type

smart00410
Location:518 → 589

IG_like; Immunoglobulin like

pfam07679
Location:242 → 327

I-set; Immunoglobulin I-set domain

pfam08205
Location:143 → 228

C2-set_2; CD80-like C2-set immunoglobulin domain

cl11960
Location:24 → 122

Ig; Immunoglobulin domain
NM_001185100.2 → NP_001172029.1 B-cell receptor CD22 isoform 3 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks an alternate coding exon compared to variant 1, that causes a frameshift. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.

Source sequence(s)

BC109306, BC109307, DA989528, DB333800, U62631, X59350

Consensus CDS

CCDS54247.1

UniProtKB/Swiss-Prot

P20273

Related

ENSP00000441237.1, ENST00000544992.6

Conserved Domains (6) summary

smart00408
Location:257 → 316

IGc2; Immunoglobulin C-2 Type

smart00410
Location:606 → 677

IG_like; Immunoglobulin like

pfam07679
Location:242 → 327

I-set; Immunoglobulin I-set domain

pfam08205
Location:143 → 228

C2-set_2; CD80-like C2-set immunoglobulin domain

pfam13927
Location:335 → 400

Ig_3; Immunoglobulin domain

cl11960
Location:24 → 122

Ig; Immunoglobulin domain
NM_001185101.2 → NP_001172030.1 B-cell receptor CD22 isoform 4 precursor

See identical proteins and their annotated locations for NP_001172030.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate in-frame segment compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.

Source sequence(s)

BC109306, DA989528, DB333800, X52785, X59350

Consensus CDS

CCDS54249.1

UniProtKB/Swiss-Prot

P20273

Related

ENSP00000339349.6, ENST00000341773.10

Conserved Domains (5) summary

smart00408
Location:431 → 489

IGc2; Immunoglobulin C-2 Type

smart00410
Location:429 → 500

IG_like; Immunoglobulin like

pfam07679
Location:333 → 412

I-set; Immunoglobulin I-set domain

pfam08205
Location:143 → 228

C2-set_2; CD80-like C2-set immunoglobulin domain

cl11960
Location:24 → 122

Ig; Immunoglobulin domain
NM_001278417.2 → NP_001265346.1 B-cell receptor CD22 isoform 5

See identical proteins and their annotated locations for NP_001265346.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) lacks the exon containing the translation initiation site and uses an alternate splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (5) has a shorter and distinct N-terminus compared to isoform 1.

Source sequence(s)

BC109306, BQ054599, CF138699, KC877723, U62631

Consensus CDS

CCDS62634.1

UniProtKB/TrEMBL

B7Z6Y6

Related

ENSP00000403822.2, ENST00000419549.6

Conserved Domains (4) summary

smart00410
Location:434 → 505

IG_like; Immunoglobulin like

pfam13927
Location:163 → 228

Ig_3; Immunoglobulin domain

cl11960
Location:4 → 56

Ig; Immunoglobulin domain

cl28434
Location:70 → 155

I-set; Immunoglobulin I-set domain
NM_001771.4 → NP_001762.2 B-cell receptor CD22 isoform 1 precursor

See identical proteins and their annotated locations for NP_001762.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AK225625, AK225694, BC109306, DB333800, X59350

Consensus CDS

CCDS12457.1

UniProtKB/Swiss-Prot

F5GYU4, F5H7U3, O95699, O95701, O95702, O95703, P20273, Q01665, Q32M46, Q92872, Q92873, Q9UQA6, Q9UQA7, Q9UQA8, Q9UQA9, Q9UQB0, Q9Y2A6

UniProtKB/TrEMBL

Q0EAF5

Related

ENSP00000085219.4, ENST00000085219.10

Conserved Domains (6) summary

smart00408
Location:257 → 316

IGc2; Immunoglobulin C-2 Type

smart00410
Location:606 → 677

IG_like; Immunoglobulin like

pfam07679
Location:242 → 327

I-set; Immunoglobulin I-set domain

pfam08205
Location:143 → 228

C2-set_2; CD80-like C2-set immunoglobulin domain

pfam13927
Location:335 → 400

Ig_3; Immunoglobulin domain

cl11960
Location:24 → 122

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000019.10 Reference GRCh38.p14 Primary Assembly

Range

35329187..35347361

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

NC_060943.1 Alternate T2T-CHM13v2.0

Range

37873914..37892093

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_024916.1: Suppressed sequence

Description

NM_024916.1: This RefSeq was permanently suppressed because it is now thought that this transcript does not encode a protein.