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

`SmilChr03G004064`

Chromosome: Chr03 Coordinates: 59602902-59607842 Strand: + Biotype: protein_coding

Basic Information

Standard Gene ID	`SmilChr03G004064`
Name	SmilChr03G004064
Description	ABC transporter E family member 2
Chromosome / SeqID	Chr03 / NC_080389.1
Coordinates and Strand	59602902 - 59607842 / `+`

ID Mapping

NCBI Gene ID	`LOC131014894`
GeneID	`131014894`
locus_tag	`-`
NCBI Name	`LOC131014894`
Original query	`SmilChr03G004064`

Open ID mapping

Functional Annotation

Source	GFF basic annotation; NCBI GO GAF; Pfam-A/HMMER; Arabidopsis/Rice homolog
Description	ABC transporter E family member 2
Product	ABC transporter E family member 2
Arabidopsis	`AT4G19210` (ABCE2) RNAse l inhibitor protein 2 [Source:NCBI gene (formerly Entrezgene);Acc:827661] identity=92.2; qcov=1; evalue=0; confidence=high
Rice	`Os11g0546000` (OsABCE2) - identity=92; qcov=0.995; evalue=0; confidence=high
GO	GO:0000054 (ribosomal subunit export from nucleus); GO:0005506 (iron ion binding); GO:0005524 (ATP binding); GO:0006413 (translational initiation); GO:0006415 (translational termination); GO:0016887 (ATP hydrolysis activity); GO:0043024 (ribosomal small subunit binding)
KEGG	-
Pfam	PF00005 (ABC_tran); PF00037 (Fer4); PF04068 (Fer4_RLI); PF12837 (Fer4_6)
InterPro	-
eggNOG	-
NR	GeneID:131014894

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Subcellular Localization Top 5

Rank	Location	Chinese	Score	Protein ID
1	Cytoplasm	细胞质	1.00000	`XP_057799023.1`
2	Cytosol	细胞质基质	1.00000	`XP_057799023.1`
3	Nucleus	细胞核	0.40000	`XP_057799023.1`
4	Nucleoplasm	核质	0.40000	`XP_057799023.1`
5	Chromosome	染色体	0.00000	`XP_057799023.1`

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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
`Chr3:59605356`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C40
`Chr3:59605597`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	C40
`Chr3:59606088`	`G`	`A`	EMS_canonical_SNV	CDS_variant	1	C40
`Chr3:59606140`	`C`	`T`	EMS_canonical_SNV	CDS_variant	1	D11
`Chr3:59606414`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B124,C12,D5
`Chr3:59607334`	`C`	`T`	EMS_canonical_SNV	CDS_variant	3	B124,C12,D5

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_057799023.1

606 aa

303

606

Fer4_RLI

Fer4_6

Fer4

ABC_tran

PF04068 Fer4_RLI 7-37 aa PF12837 Fer4_6 50-71 aa PF00037 Fer4 50-72 aa PF00005 ABC_tran 103-245 aa PF00005 ABC_tran 366-496 aa

XP_057799024.1

606 aa

303

606

Fer4_RLI

Fer4_6

Fer4

ABC_tran

PF04068 Fer4_RLI 7-37 aa PF12837 Fer4_6 50-71 aa PF00037 Fer4 50-72 aa PF00005 ABC_tran 103-245 aa PF00005 ABC_tran 366-496 aa

Protein ID	Source	Domain ID	Domain name	Type	Start aa	End aa	E-value	Score	Description
`XP_057799023.1`	Pfam	`PF04068`	Fer4_RLI	Family	7	37	3.6e-13	49.7	Possible Fer4-like domain in RNase L inhibitor, RLI
`XP_057799023.1`	Pfam	`PF12837`	Fer4_6	Domain	50	71	1.5e-06	28.5	4Fe-4S binding domain
`XP_057799023.1`	Pfam	`PF00037`	Fer4	Domain	50	72	2.5e-08	34.1	4Fe-4S binding domain
`XP_057799023.1`	Pfam	`PF00005`	ABC_tran	Domain	103	245	9e-38	130.7	ABC transporter
`XP_057799023.1`	Pfam	`PF00005`	ABC_tran	Domain	366	496	9e-38	130.7	ABC transporter
`XP_057799024.1`	Pfam	`PF04068`	Fer4_RLI	Family	7	37	3.6e-13	49.7	Possible Fer4-like domain in RNase L inhibitor, RLI
`XP_057799024.1`	Pfam	`PF12837`	Fer4_6	Domain	50	71	1.5e-06	28.5	4Fe-4S binding domain
`XP_057799024.1`	Pfam	`PF00037`	Fer4	Domain	50	72	2.5e-08	34.1	4Fe-4S binding domain
`XP_057799024.1`	Pfam	`PF00005`	ABC_tran	Domain	103	245	9e-38	130.7	ABC transporter
`XP_057799024.1`	Pfam	`PF00005`	ABC_tran	Domain	366	496	9e-38	130.7	ABC transporter

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

2 records

Download cDNA FASTA

XM_057943040.1
ATACTAGTAATAAACAGTGATTTAGTCGAAAAATAGAAAACAGAAAATAGTAGTAATAAAAAAACCCTTCTTTATTCCCTCTTGGAACCCTAGCACCGTTTATCTTTCTTCTGCGTGTGTCTGCCATCCTCTCTCTCTCCCGAATCTCGCAGCCCGCAGAGACCAGTTTGAATAGAGAGAGATGTCGGATCAGAAACTGACGCGTATCGCTATAGTGAGCTCCGACAAGTGCAAGCCTAAGAAATGTCGTCAGGAGTGCA...

XM_057943041.1
CAGAAAATAGTAGTAATAAAAAAACCCTTCTTTATTCCCTCTTGGAACCCTAGCACCGTTTATCTTTCTTCTGCGTGTGTCTGCCATCCTCTCTCTCTCCCGAATCTCGCAGCCCGCAGTTTGAATAGAGAGAGATGTCGGATCAGAAACTGACGCGTATCGCTATAGTGAGCTCCGACAAGTGCAAGCCTAAGAAATGTCGTCAGGAGTGCAAAAAGAGTTGCCCTGTTGTCAAAACAGGTAAACTTTGCATAGAAGTG...

CDS

2 records

Download CDS FASTA

LOC131014894
ATGTCGGATCAGAAACTGACGCGTATCGCTATAGTGAGCTCCGACAAGTGCAAGCCTAAGAAATGTCGTCAGGAGTGCAAAAAGAGTTGCCCTGTTGTCAAAACAGGTAAACTTTGCATAGAAGTGACTCCTGCATCCAAGATAGCTTTCATCTCAGAGGAGTTGTGTATTGGATGTGGTATTTGTGTGAAGAAATGCCCATTTGAAGCAATTCAGATTATTAATCTACCAAAAGACTTGGACAAGGATACAACCCATCG...

Protein

2 records

Download Protein FASTA

XP_057799023.1
MSDQKLTRIAIVSSDKCKPKKCRQECKKSCPVVKTGKLCIEVTPASKIAFISEELCIGCGICVKKCPFEAIQIINLPKDLDKDTTHRYGPNTFKLHRLPVPRPGQVLGLVGTNGIGKSTALKVLAGKLKPNLGRFNNPPDWQEILTYFRGSELQNYFTRILEDNLKAIIKPQYVDHIPKAVQGNVGQVLSQKDERDMKQELAADLELIQVMDRNVGDLSGGELQRFAIAVVAVQNAEIYMFDEPSSYLDVKQRLKAAQVV...

XP_057799024.1
MSDQKLTRIAIVSSDKCKPKKCRQECKKSCPVVKTGKLCIEVTPASKIAFISEELCIGCGICVKKCPFEAIQIINLPKDLDKDTTHRYGPNTFKLHRLPVPRPGQVLGLVGTNGIGKSTALKVLAGKLKPNLGRFNNPPDWQEILTYFRGSELQNYFTRILEDNLKAIIKPQYVDHIPKAVQGNVGQVLSQKDERDMKQELAADLELIQVMDRNVGDLSGGELQRFAIAVVAVQNAEIYMFDEPSSYLDVKQRLKAAQVV...

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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