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

`SmilChr03G002613`

Chromosome: Chr03 Coordinates: 41530122-41532042 Strand: - Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr03G002613`
Name	SmilChr03G002613
Description	protein OSB4, chloroplastic-like
Chromosome / SeqID	Chr03 / NC_080389.1
Coordinates and Strand	41530122 - 41532042 / `-`

ID Mapping

NCBI Gene ID	`LOC131016768`
GeneID	`131016768`
locus_tag	`-`
NCBI Name	`LOC131016768`
Original query	`SmilChr03G002613`

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Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	protein OSB4, chloroplastic-like
Product	protein OSB4%2C chloroplastic-like
Arabidopsis	`AT5G44785` (OSB3) organellar single-stranded DNA binding protein 3 [Source:NCBI gene (formerly Entrezgene);Acc:834508] identity=30.1; qcov=0.868; evalue=8.08e-48; confidence=low
Rice	`Os01g0949060` (B1147A04.4-2) - identity=31.1; qcov=0.585; evalue=1.34e-27; confidence=low
GO	GO:0003697 (single-stranded DNA binding); GO:0006264 (mitochondrial DNA replication); GO:0042645 (mitochondrial nucleoid); GO:0051096 (positive regulation of helicase activity)
KEGG	-
Pfam	PF30937 (OSB_PDF); PF30940 (OSB_SSB)
InterPro	-
eggNOG	-
NR	GeneID:131016768

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Mitochondrion	线粒体	1.00000	`XP_057801480.1`
2	Nucleus	细胞核	0.00000	`XP_057801480.1`
3	Chromosome	染色体	0.00000	`XP_057801480.1`
4	Centromere	着丝粒	0.00000	`XP_057801480.1`
5	Chromatin	染色质	0.00000	`XP_057801480.1`

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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
`Chr3:41530419`	`CA`	`C`	1bp_deletion	frameshift_variant	1	B103
`Chr3:41530419`	`CA`	`C`	1bp_deletion	CDS_variant	1	B103
`Chr3:41530470`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	B131
`Chr3:41530515`	`GC`	`G`	1bp_deletion	frameshift_variant	1	B94
`Chr3:41530515`	`GC`	`G`	1bp_deletion	CDS_variant	1	B94
`Chr3:41530963`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	B94
`Chr3:41531138`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B127,C20,C27
`Chr3:41531335`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B137,C19,D11
`Chr3:41531620`	`C`	`T`	EMS_canonical_SNV	CDS_variant	4	B76,B94,C36,C49
`Chr3:41531727`	`G`	`A`	EMS_canonical_SNV	CDS_variant	4	B105,B115,B138,C34

Open EMS variants

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_057801480.1

494 aa

247

494

OSB_SSB

OSB_PDF

PF30940 OSB_SSB 77-176 aa PF30937 OSB_PDF 279-335 aa PF30937 OSB_PDF 431-479 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057801480.1`	Pfam	`PF30940`	OSB_SSB	Domain	77	176	7.3e-26	91.0	OSB SSB domain
`XP_057801480.1`	Pfam	`PF30937`	OSB_PDF	Repeat	279	335	6.2e-45	151.2	OSB PDF repeat
`XP_057801480.1`	Pfam	`PF30937`	OSB_PDF	Repeat	431	479	6.2e-45	151.2	OSB PDF repeat

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_057945497.1
ATAAAAAATATGAAAACCTAAAACAATGTATTTGGAAAAAAAATGTATTTTCAAAACAATGTCTAAATTCCCACCCAAGCCAAAACCCTGCATAAACCCTAGTTGAAACAGCCCCCAATTGTTCTCTGAATCAATTAACCATGAATTTACTTTTCAGAGCAAAATTATCCGGCCGAATCCGCCTCTCCCTTTCACCACTTTCTTCCCTTCAACAATCGTATTCCTATGCCACCTCAAAAACCCCTAAACCAACCAGCCCT...

CDS

1 records

Download CDS FASTA

LOC131016768
ATGAATTTACTTTTCAGAGCAAAATTATCCGGCCGAATCCGCCTCTCCCTTTCACCACTTTCTTCCCTTCAACAATCGTATTCCTATGCCACCTCAAAAACCCCTAAACCAACCAGCCCTAAATCCCAGAAATCTTCCACACCATCATCGAGTTTTTCTGAGAGAATCAAGAAACCGACGGGTGACGTGATCGTTTGGCCCAAGCCGAGCGAGATTCCGTATCAAGCGAAAGTTGCTAATTTTGTAAAATTGATCGGATA...

Protein

1 records

Download Protein FASTA

XP_057801480.1
MNLLFRAKLSGRIRLSLSPLSSLQQSYSYATSKTPKPTSPKSQKSSTPSSSFSERIKKPTGDVIVWPKPSEIPYQAKVANFVKLIGYVNVPVQFDTLPGGKHYATTAISQEISDGRDPVLIAAVFEGDLAHVVASHVKVNDCVLVSGQLSSEPLLRFAKGDGFGRLHILGENLNFVEGFTRRVSSKKSEGSVFAVGIEKNVVEGVDDGKFEQQWEKALDDAKVKKFSGETNWGSGTVSVESNVGTKGAMPGSGEAKLEKG...

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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