Carg27443 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg27443
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	Unknown protein
Location	Cucurbita_argyrosperma_scaffold_494 : 55722 .. 56168 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGTTACTCGCTAGGGGTTTCGAGCCTGATACCGTGACTCTATCCGCTCTAATAGATGGTCTATGCAAGAATGGATACTTGCAGGAGGCTAGACGGTACGTGGTCAAAGAAAAGGCCAATGAAATTCTATATACAATGCTTATAGATGCACTATGTAAGGAGGGTAATTTAGATGAAGCTGAGAGAACCATTAAGGAAATGTGTGAGGCAGGGTTTGTTCCTGATAAATATGTGTATACTTCTTGGATTGCAGAGCTTTGCAAGCAAGGAAATTTGCTCAAGGCTTTCACGGTCAAGAAAAGGATGGTTCAAGAGAACATTGAACCTGATTTATTAACCTACAGTTCCCTGATTGGTGGTTTGGCGGAGAAGGGACTAATGATAGAAGCCAAACAGGTTTTTGATGACATGTTAAATGCAGGAATCACTCCAGATTCTGTTGATTAG

mRNA sequence

ATGTTACTCGCTAGGGGTTTCGAGCCTGATACCGTGACTCTATCCGCTCTAATAGATGGTCTATGCAAGAATGGATACTTGCAGGAGGCTAGACGGTACGTGGTCAAAGAAAAGGCCAATGAAATTCTATATACAATGCTTATAGATGCACTATGTAAGGAGGGTAATTTAGATGAAGCTGAGAGAACCATTAAGGAAATGTGTGAGGCAGGGTTTGTTCCTGATAAATATGTGTATACTTCTTGGATTGCAGAGCTTTGCAAGCAAGGAAATTTGCTCAAGGCTTTCACGGTCAAGAAAAGGATGGTTCAAGAGAACATTGAACCTGATTTATTAACCTACAGTTCCCTGATTGGTGGTTTGGCGGAGAAGGGACTAATGATAGAAGCCAAACAGGTTTTTGATGACATGTTAAATGCAGGAATCACTCCAGATTCTGTTGATTAG

Coding sequence (CDS)

ATGTTACTCGCTAGGGGTTTCGAGCCTGATACCGTGACTCTATCCGCTCTAATAGATGGTCTATGCAAGAATGGATACTTGCAGGAGGCTAGACGGTACGTGGTCAAAGAAAAGGCCAATGAAATTCTATATACAATGCTTATAGATGCACTATGTAAGGAGGGTAATTTAGATGAAGCTGAGAGAACCATTAAGGAAATGTGTGAGGCAGGGTTTGTTCCTGATAAATATGTGTATACTTCTTGGATTGCAGAGCTTTGCAAGCAAGGAAATTTGCTCAAGGCTTTCACGGTCAAGAAAAGGATGGTTCAAGAGAACATTGAACCTGATTTATTAACCTACAGTTCCCTGATTGGTGGTTTGGCGGAGAAGGGACTAATGATAGAAGCCAAACAGGTTTTTGATGACATGTTAAATGCAGGAATCACTCCAGATTCTGTTGATTAG

Protein sequence

MLLARGFEPDTVTLSALIDGLCKNGYLQEARRYVVKEKANEILYTMLIDALCKEGNLDEAERTIKEMCEAGFVPDKYVYTSWIAELCKQGNLLKAFTVKKRMVQENIEPDLLTYSSLIGGLAEKGLMIEAKQVFDDMLNAGITPDSVD

Homology

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BLAST of Carg27443 vs. NCBI nr
Match: XP_022776481.1 (LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g01740 [Durio zibethinus])

HSP 1 Score: 64.7 bits (156), Expect = 3.0e-07
Identity = 33/74 (44.59%), Postives = 39/74 (52.70%), Query Frame = 0


Query: 2   LLARGFEPDTVTLSALIDGLCKNGYLQEARRYVVKEKANEXXXXXXXXXXXXXXXXXXXX 61
           LLARGF+PD V LS+L+DGLCK+G L EA  Y   EKANE                    
Sbjct: 403 LLARGFDPDVVVLSSLMDGLCKHGCLHEAESYFCTEKANELSYTVLIDGLAKKGDFTDLN 462

Query: 62  XXXKEMCEAGFVPD 76
              K++ E GF PD
Sbjct: 463 RVFKQILEXGFTPD 476

The following BLAST results are available for this feature:

BLAST of Carg27443 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022776481.1	3.0e-07	44.59	LOW QUALITY PROTEIN: pentatricopeptide repeat-containing protein At2g01740 [Duri...	[more]

BLAST of Carg27443 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of Carg27443 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Carg27443 vs. TrEMBL


Match Name	E-value	Identity	Description

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0005515	protein binding

Vocabulary: **INTERPRO**
Term	Definition
IPR002885	Pentatricopeptide_repeat
IPR011990	TPR-like_helical_dom_sf

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0005515	protein binding

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Carg27443-RA	Carg27443-RA	mRNA

InterPro

Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	G3DSA:1.25.40.10		coord: 38..148 e-value: 4.7E-29 score: 103.7
IPR011990	Tetratricopeptide-like helical domain superfamily	GENE3D	G3DSA:1.25.40.10		coord: 1..37 e-value: 1.4E-6 score: 29.9
IPR002885	Pentatricopeptide repeat	PFAM	PF13041	PPR_2	coord: 40..88 e-value: 2.3E-11 score: 43.6
IPR002885	Pentatricopeptide repeat	TIGRFAM	TIGR00756	TIGR00756	coord: 43..75 e-value: 1.5E-11 score: 41.7 coord: 77..110 e-value: 6.1E-7 score: 27.2 coord: 12..33 e-value: 0.0015 score: 16.6 coord: 113..146 e-value: 4.9E-8 score: 30.7
IPR002885	Pentatricopeptide repeat	PFAM	PF12854	PPR_1	coord: 5..31 e-value: 1.9E-9 score: 37.0 coord: 106..137 e-value: 6.0E-8 score: 32.2
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 40..74 score: 13.044
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 10..37 score: 6.412
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 75..109 score: 9.986
IPR002885	Pentatricopeptide repeat	PROSITE	PS51375	PPR	coord: 110..144 score: 12.079
None	No IPR available	PANTHER	PTHR24015:SF329	SUBFAMILY NOT NAMED	coord: 3..147
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 3..147

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Carg27443	Cla002193	Watermelon (97103) v1	carwmB0977
Carg27443	Csa5G021290	Cucumber (Chinese Long) v2	carcuB0986
Carg27443	ClCG07G005540	Watermelon (Charleston Gray)	carwcgB0950
Carg27443	CSPI05G00530	Wild cucumber (PI 183967)	carcpiB1009
Carg27443	CmaCh04G000780	Cucurbita maxima (Rimu)	carcmaB1344
Carg27443	CmoCh04G000750	Cucurbita moschata (Rifu)	carcmoB1305
Carg27443	Cp4.1LG01g06140	Cucurbita pepo (Zucchini)	carcpeB1348
Carg27443	CsGy5G010770	Cucumber (Gy14) v2	carcgybB0959
Carg27443	CsaV3_5G014350	Cucumber (Chinese Long) v3	carcucB1014
Carg27443	Cla97C07G133860	Watermelon (97103) v2	carwmbB1026
Carg27443	Bhi07G000365	Wax gourd	carwgoB1140

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:

None