NCBP2AS2

Summary

NCBP2AS2 (NCBP2 antisense 2 (head to head), HGNC:25121) is a protein-coding gene on chromosome 3q29, encoding Protein NCBP2AS2 (Q69YL0).

Located in mitochondrion.

Source: NCBI Gene 152217 — RefSeq curated summary.

At a glance

• GWAS associations: 3
• MANE Select transcript: NM_001355243

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:25121
Approved symbol	NCBP2AS2
Name	NCBP2 antisense 2 (head to head)
Location	3q29
Locus type	gene with protein product
Status	Approved
Aliases	HIAR, KRASIM
Ensembl gene	ENSG00000270170
Ensembl biotype	protein_coding
Entrez	152217

Gene structure

Transcript identifiers

Ensembl transcripts: 1 — 1 protein_coding

ENST00000602845

RefSeq mRNA: 1 — MANE Select: NM_001355243 NM_001355243

CCDS: CCDS87189

Canonical transcript exons

ENST00000602845 — 1 exons

Exon	Start	End
ENSE00003254567	196942674	196943543

Expression profiles

Bgee: expression breadth ubiquitous, 134 present calls, max score 94.64.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 19.0504 / max 115.8831, expressed in 1801 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
40758	19.0504	1801

Top tissues by expression

134 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
mucosa of transverse colon	UBERON:0004991	94.64	gold quality
apex of heart	UBERON:0002098	92.49	gold quality
prefrontal cortex	UBERON:0000451	92.30	gold quality
Brodmann (1909) area 9	UBERON:0013540	92.28	gold quality
superior frontal gyrus	UBERON:0002661	92.22	gold quality
gastrocnemius	UBERON:0001388	92.02	gold quality
primary visual cortex	UBERON:0002436	91.86	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	91.86	gold quality
frontal cortex	UBERON:0001870	91.85	gold quality
transverse colon	UBERON:0001157	91.55	gold quality
muscle of leg	UBERON:0001383	91.51	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	91.42	gold quality
cerebral cortex	UBERON:0000956	91.31	gold quality
putamen	UBERON:0001874	91.28	gold quality
hindlimb stylopod muscle	UBERON:0004252	91.24	gold quality
nucleus accumbens	UBERON:0001882	91.18	gold quality
anterior cingulate cortex	UBERON:0009835	91.13	gold quality
right frontal lobe	UBERON:0002810	91.09	gold quality
granulocyte	CL:0000094	90.98	gold quality
hypothalamus	UBERON:0001898	90.90	gold quality
caudate nucleus	UBERON:0001873	90.29	gold quality
Ammon’s horn	UBERON:0001954	89.96	gold quality
amygdala	UBERON:0001876	89.95	gold quality
brain	UBERON:0000955	89.91	gold quality
temporal lobe	UBERON:0001871	89.90	gold quality
colon	UBERON:0001155	89.71	gold quality
heart left ventricle	UBERON:0002084	89.69	gold quality
muscle layer of sigmoid colon	UBERON:0035805	89.53	gold quality
substantia nigra	UBERON:0002038	89.43	gold quality
leukocyte	CL:0000738	89.38	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

Literature-anchored findings (GeneRIF, showing 1)

• The uncharacterized protein hypoxia-induced angiogenesis regulator (NCBP2-AS2) that was renamed HIAR (hypoxia-induced angiogenesis regulator) was the protein most increased in abundance in hypoxic cancer-associated fibroblasts (CAFs). (PMID:30723174)

Cross-species orthologs

4 orthologs

Organism	Symbol	Gene ID
danio_rerio	ncbp2as2	ENSDARG00000104726
mus_musculus	Ncbp2as2	ENSMUSG00000107002
rattus_norvegicus	Ncbp2as2	ENSRNOG00000067943
drosophila_melanogaster	CG42518	FBGN0260392

Protein

Protein identifiers

Protein NCBP2AS2 — Q69YL0 (reviewed: Q69YL0)

Alternative names: Hypoxia-induced angiogenesis regulator, NCBP2 antisense gene protein 2

All UniProt accessions (1): Q69YL0

UniProt curated annotations — full annotation on UniProt →

Miscellaneous. Induced by hypoxia in cancer-associated fibroblasts and promotes tumor angiogenesis by causing increased secretion of VEGFA which leads to endothelial sprouting.

RefSeq proteins (1): NP_001342172* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR042407	NCBP2-AS2	Family

UniProt features (2 total): chain 1, region of interest 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q69YL0-F1	71.29	0.01

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 99 (showing top): GSE45365_CD8A_DC_VS_CD11B_DC_IFNAR_KO_UP, GGAANCGGAANY_UNKNOWN, YAO_TEMPORAL_RESPONSE_TO_PROGESTERONE_CLUSTER_9, ALKBH3_TARGET_GENES, DIDO1_TARGET_GENES, ELF2_TARGET_GENES, FEV_TARGET_GENES, HDAC4_TARGET_GENES, HHEX_TARGET_GENES, HOXA10_TARGET_GENES, HOXB6_TARGET_GENES, ID1_TARGET_GENES, LMTK3_TARGET_GENES, NKX2_2_TARGET_GENES, NR1I2_TARGET_GENES

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (1): mitochondrion (GO:0005739)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	1
cytoplasm	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

132 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
NCBP2AS2	NCBP2L	A6PVI3	616
NCBP2AS2	NCBP2	P52298	502
NCBP2AS2	KRAS	P01116	481
NCBP2AS2	RAB5C	P51148	445
NCBP2AS2	MBLAC2	Q68D91	396
NCBP2AS2	PIGBOS1	A0A0B4J2F0	370
NCBP2AS2	PHB2	Q99623	359
NCBP2AS2	C22orf39	Q6P5X5	351
NCBP2AS2	LYRM9	A8MSI8	348
NCBP2AS2	SMIM30	A4D0T7	348
NCBP2AS2	MTLN	Q8NCU8	323
NCBP2AS2	TMEM256	Q8N2U0	308
NCBP2AS2	DNAJC30	Q96LL9	279
NCBP2AS2	KIF19	Q2TAC6	276
NCBP2AS2	ANTKMT	Q9BQD7	269

IntAct

25 interactions, top by confidence:

A	B	Type	Score
RBM8A	CASC3	psi-mi:“MI:0914”(association)	0.900
NCBP2AS2	RHBDD2	psi-mi:“MI:0915”(physical association)	0.560
COX20	NCBP2AS2	psi-mi:“MI:0915”(physical association)	0.560
LAMP2	NCBP2AS2	psi-mi:“MI:0915”(physical association)	0.560
SH3GLB1	NCBP2AS2	psi-mi:“MI:0915”(physical association)	0.560
NCBP2AS2	COQ8A	psi-mi:“MI:0915”(physical association)	0.560
Rab5c		psi-mi:“MI:0914”(association)	0.350
PPP2R3C	OFD1	psi-mi:“MI:0914”(association)	0.350
Smn1	CLNS1A	psi-mi:“MI:0914”(association)	0.350
Kif19		psi-mi:“MI:0914”(association)	0.350
KRAS		psi-mi:“MI:0914”(association)	0.350
NCBP2	TARS3	psi-mi:“MI:0914”(association)	0.350
M		psi-mi:“MI:0914”(association)	0.350
SV2B	C15orf61	psi-mi:“MI:0914”(association)	0.350
NCBP2AS2	RHBDD2	psi-mi:“MI:0915”(physical association)	0.000
NCBP2AS2	COX20	psi-mi:“MI:0915”(physical association)	0.000

ESM2 similar proteins: A0A9P5BNK0, A2Y0H2, A6QLL0, B0FJL7, E9F970, F4JNX2, M0R7Z9, O48832, O60240, O60664, O82246, O82803, P0DKW0, P0DMN9, P0DMS3, P0DOC1, P0DP52, P0DTQ9, P0DUX6, P0DUX7, P0DUY0, P0DUY1, P12278, P15252, P18658, P19034, P29530, P43883, P43884, Q00368, Q00G26, Q41112, Q4PLW0, Q5BLZ2, Q5RAV8, Q69YL0, Q84K90, Q8BVZ1, Q8CGN5, Q99541

Diamond homologs: B7Q290, Q69YL0

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

0 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	0
Likely benign	0
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

166 predictions. Top by Δscore:

Variant	Effect	Δscore
3:196943057:C:CA	acceptor_gain	0.7400
3:196943141:A:AG	acceptor_gain	0.6700
3:196943142:G:GG	acceptor_gain	0.6700
3:196943142:GAC:G	acceptor_gain	0.6700
3:196943058:G:A	acceptor_gain	0.6600
3:196943068:GT:G	acceptor_gain	0.6500
3:196942942:GAGC:G	donor_gain	0.6400
3:196943067:A:AG	acceptor_gain	0.6100
3:196943068:G:GG	acceptor_gain	0.6100
3:196943316:G:GG	donor_gain	0.6100
3:196943068:GTGGC:G	acceptor_gain	0.5700
3:196943067:AGT:A	acceptor_gain	0.5500
3:196943068:GTG:G	acceptor_gain	0.5500
3:196943371:T:G	donor_gain	0.5500
3:196943320:G:GT	donor_gain	0.5200
3:196942766:TGGA:T	donor_gain	0.5100
3:196942945:C:G	donor_gain	0.5100
3:196943184:TTG:T	donor_gain	0.5100
3:196942852:G:GT	donor_gain	0.4900
3:196943094:C:CA	acceptor_gain	0.4900
3:196943476:C:T	donor_gain	0.4800
3:196943057:CGGG:C	acceptor_gain	0.4600
3:196943095:G:A	acceptor_gain	0.4600
3:196943338:A:G	donor_gain	0.4600
3:196943367:A:T	donor_gain	0.4600
3:196943382:G:T	donor_gain	0.4600
3:196943056:CCGGG:C	acceptor_gain	0.4500
3:196943065:ACAGT:A	acceptor_gain	0.4500
3:196943142:GA:G	acceptor_gain	0.4500
3:196943242:TGAAG:T	donor_loss	0.4300

AlphaMissense

597 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
3:196942793:T:A	I26N	0.961
3:196942793:T:C	I26T	0.952
3:196942783:T:C	S23P	0.928
3:196942802:C:A	A29E	0.927
3:196942817:C:A	A34D	0.927
3:196942823:C:A	A36E	0.924
3:196942804:G:C	A30P	0.914
3:196942793:T:G	I26S	0.913
3:196942805:C:A	A30E	0.910
3:196942819:T:C	F35L	0.901
3:196942821:C:A	F35L	0.901
3:196942821:C:G	F35L	0.901
3:196942814:C:A	T33K	0.876
3:196942934:T:C	F73S	0.876
3:196942775:T:A	L20Q	0.864
3:196942922:T:C	F69S	0.856
3:196942777:T:C	S21P	0.853
3:196942933:T:C	F73L	0.853
3:196942935:C:A	F73L	0.853
3:196942935:C:G	F73L	0.853
3:196942834:G:C	A40P	0.850
3:196942835:C:A	A40D	0.850
3:196942801:G:C	A29P	0.846
3:196942766:T:A	V17E	0.836
3:196942921:T:C	F69L	0.822
3:196942923:T:A	F69L	0.822
3:196942923:T:G	F69L	0.822
3:196942816:G:C	A34P	0.819
3:196942799:G:C	R28P	0.809
3:196942811:T:C	L32P	0.805

dbSNP variants (sampled 300 via entrez): RS1000108563 (3:196941161 G>A,C,T), RS1000807537 (3:196940812 T>G), RS1000859702 (3:196941070 T>G), RS1001237265 (3:196941428 C>G), RS1001268638 (3:196941693 C>A,G,T), RS1003487448 (3:196943571 C>A), RS1003562695 (3:196942548 C>A,G), RS1003593663 (3:196942656 G>A), RS1003610362 (3:196943901 C>A,T), RS1003986033 (3:196943859 C>T), RS1004337875 (3:196943507 G>A), RS1004550227 (3:196942763 T>G), RS1004928659 (3:196942668 G>C,T), RS1005397151 (3:196942808 A>C,T), RS1006490915 (3:196943844 C>G,T)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

3 associations (top):

Study	Trait	p-value
GCST003542_204	Night sleep phenotypes	9.000000e-06
GCST008758_42	Pre-treatment viral load in HIV-1 infection	2.000000e-17
GCST010725_2	Malaria	8.000000e-06

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0010125	viral load

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

14 total (human), top 14 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	decreases expression, affects cotreatment, increases abundance, increases expression	2
Tobacco Smoke Pollution	increases expression	2
aristolochic acid I	increases expression	1
mono-(2-ethylhexyl)phthalate	affects expression	1
manganese chloride	increases expression, affects cotreatment, increases abundance	1
resorcinol	increases expression	1
fipronil	increases expression, affects cotreatment	1
Arsenic	increases abundance, increases expression, affects cotreatment	1
DEET	affects cotreatment, increases expression	1
Ketoconazole	increases expression	1
Manganese	increases abundance, increases expression, affects cotreatment	1
Smoke	decreases expression	1
Thiram	decreases expression	1
Valproic Acid	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.