Gene Card

Search by standard ID, NCBI Gene ID, GeneID, locus tag, transcript ID, protein ID, or a manually reviewed literature gene name. The page resolves the query to a Red Sage gene and integrates coordinates, sequences, annotations, subcellular localization, EMS variants, and downloads.

Resolved gene

`SmilChr01G000010`

Chromosome: Chr01 Coordinates: 221140-225414 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr01G000010`
Name	SmilChr01G000010
Description	probable boron transporter 2
Chromosome / SeqID	Chr01 / NC_080387.1
Coordinates and Strand	221140 - 225414 / `-`

ID Mapping

NCBI Gene ID	`LOC131006427`
GeneID	`131006427`
locus_tag	`-`
NCBI Name	`LOC131006427`
Original query	`LOC131006427`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	probable boron transporter 2
Product	probable boron transporter 2
Arabidopsis	`AT3G62270` (AT3G62270) HCO3- transporter family [Source:NCBI gene (formerly Entrezgene);Acc:825400] identity=79.7; qcov=0.967; evalue=0; confidence=high
Rice	`Os12g0566000` (BOR1) - identity=80.9; qcov=0.988; evalue=0; confidence=high
GO	GO:0005452 (solute:inorganic anion antiporter activity); GO:0005886 (plasma membrane); GO:0006820 (monoatomic anion transport); GO:0050801 (monoatomic ion homeostasis); GO:0055085 (transmembrane transport)
KEGG	-
Pfam	PF00955 (HCO3_cotransp)
InterPro	-
eggNOG	-
NR	GeneID:131006427

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Cell membrane	细胞膜	1.00000	`XP_057789579.1`
2	Vacuole membrane	液泡膜	0.80000	`XP_057789579.1`
3	Vacuole	液泡	0.40000	`XP_057789579.1`
4	Nucleus	细胞核	0.00000	`XP_057789579.1`
5	Chromosome	染色体	0.00000	`XP_057789579.1`

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EMS Mutant Variants

The table shows the first 12 candidate EMS variants for this gene. Open the EMS module for full filtering and downloads.

Position	REF	ALT	Type	Effect	Carriers	Samples
`Chr1:221361`	`C`	`T`	EMS_canonical_SNV	CDS_variant	2	A2,B127
`Chr1:221378`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B139
`Chr1:222197`	`G`	`A`	EMS_canonical_SNV	CDS_variant	2	B11,C27
`Chr1:222211`	`TTC`	`T`	2bp_deletion	frameshift_variant	1	A3
`Chr1:222211`	`TTC`	`T`	2bp_deletion	CDS_variant	1	A3
`Chr1:223514`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B104
`Chr1:223571`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	A5,B54,C1,C40

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Predicted Protein Domains

Domain results are from the Pfam-A HMM database and HMMER hmmscan; positions are amino-acid coordinates on the corresponding protein sequence.

XP_057789579.1

720 aa

360

720

HCO3_cotransp

PF00955 HCO3_cotransp 7-180 aa PF00955 HCO3_cotransp 199-372 aa PF00955 HCO3_cotransp 460-602 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057789579.1`	Pfam	`PF00955`	HCO3_cotransp	Domain	7	180	2.2e-90	304.7	HCO3- transporter integral membrane domain
`XP_057789579.1`	Pfam	`PF00955`	HCO3_cotransp	Domain	199	372	2.2e-90	304.7	HCO3- transporter integral membrane domain
`XP_057789579.1`	Pfam	`PF00955`	HCO3_cotransp	Domain	460	602	2.2e-90	304.7	HCO3- transporter integral membrane domain

cDNA / CDS / Protein Sequences

Download genomic DNA (gene region only)

Every public gene has transcript sequence from the reference annotation. Protein-coding genes also have CDS and protein sequences. CDS and protein downloads do not apply to noncoding RNA. Version suffixes of original accessions are retained.

cDNA

1 records

Download cDNA FASTA

XM_057933596.1
ATCCTCACCCAAAAAATGCATTGCCAGCGACAGCTAGGCTCGAACTGTATTCTTCTTTTCCTCTTCAGCAGTTCAGAGCTTTTACTATATTTAATGAGCTCAAGCACAACTATTTGGCAATTTATTTACGAGTTGTGATTGTATGGTGCATTGTTCAATAATACTGCAGATCCCTTTTCAGCAGCTATCCTTTTGACCCGCCTCTCTCTCTCTCTCTCTCTCGCACACACACAGTCGTCACTTGTTTCTTCTCTAACTAG...

CDS

1 records

Download CDS FASTA

LOC131006427
ATGGAAGAATCATTTGTGCCCTTTCGTGGGATTAAGAATGATATTCATAACCGGCTGCATTGCTACAAGCAAGATTGGAGTGGTGGATTCAAGGCTGGTTTCAGAATATTGGCTCCTACAACCTACATATTCTTTGCTTCTGCTATTCCAGTTATTTCATTTGGTGAACAACTGGAGAGAAGCACAGAGGGAGTTTTAACTGCTGTTCAGACTTTAGCATCCACTGCTGTTTGTGGAATCATACACTCAATAATTGGAGG...

Protein

1 records

Download Protein FASTA

XP_057789579.1
MEESFVPFRGIKNDIHNRLHCYKQDWSGGFKAGFRILAPTTYIFFASAIPVISFGEQLERSTEGVLTAVQTLASTAVCGIIHSIIGGQPLLILGVAEPTVIMYTFMFNFAKQRSDLGRELFLAWTGWVCVWTAALLFLLAILGACSIINRFTRLAGELFGMLIAMLFMQQAIKGLVDEFRIPKREDTSLPAFMSSWRFANGMFALVLSFGLLLTALKSRKARSWRYGSGSLRSLIADYGVPLMVLVWTAVSYIPSKNVPE...

Flanking Sequence Downloads

Upstream/downstream length is capped at 10000 bp. Negative-strand genes are reverse-complemented so the exported FASTA follows transcriptional 5′ to 3′ orientation.

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