Carg17422 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg17422
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	Pre-rRNA-processing protein TSR2
Location	Cucurbita_argyrosperma_scaffold_092 : 538298 .. 538861 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGGCAGGATCAATCTCCAGCCTCGAAATGGCTATTTCGTCGGTGTTTTCTCGGTGGGACGGCCTTCAAATGGCCATTGATCACAAATGGGGCGGTGGCGATTCTCACCAGAAACCGCTGAATCTCGCCTCAGATGTCTTCTCTTGGTTCTCTCAATCCAAACGTTGTTACATTAAAATTACCTTCCGGAGTTTCTCGATCTTCTTCCATGGATCTAATTCCGTTATGCTTCCTTCCATTGCAGCTCCCCTGTACGTGGAAGATCTGGAAAATTTGCTCCATGAACAACACCTGCTTCTCTCCTTCAACACCGAGATCGAAGATGGTAGCATCGAACAGGTAAATTCCCCTAACGAATTATTGGATTACGACATCGAAAATACACAGATTAAAAGAGGATGAAAATTCGAACAGGTAGCAGAGCAATTGATGATGGTATACGAAGAAAATTTGTAGGATCTATGTTCATCAGAGAAATTAAACAATCTGCCCATTGGCCTGAAGCGAAATCCTCCGAGAATTATTGTCATCAATGTTCAAAATTGGAACTTCGTAAATGGATGA

mRNA sequence

ATGGCAGGATCAATCTCCAGCCTCGAAATGGCTATTTCGTCGGTGTTTTCTCGGTGGGACGGCCTTCAAATGGCCATTGATCACAAATGGGGCGGTGGCGATTCTCACCAGAAACCGCTGAATCTCGCCTCAGATGTCTTCTCTTGGTTCTCTCAATCCAAACGTTGTTACATTAAAATTACCTTCCGGAGTTTCTCGATCTTCTTCCATGGATCTAATTCCGTTATGCTTCCTTCCATTGCAGCTCCCCTGTACGTGGAAGATCTGGAAAATTTGCTCCATGAACAACACCTGCTTCTCTCCTTCAACACCGAGATCGAAGATGGTAGCATCGAACAGGATCTATGTTCATCAGAGAAATTAAACAATCTGCCCATTGGCCTGAAGCGAAATCCTCCGAGAATTATTGTCATCAATGTTCAAAATTGGAACTTCGTAAATGGATGA

Coding sequence (CDS)

ATGGCAGGATCAATCTCCAGCCTCGAAATGGCTATTTCGTCGGTGTTTTCTCGGTGGGACGGCCTTCAAATGGCCATTGATCACAAATGGGGCGGTGGCGATTCTCACCAGAAACCGCTGAATCTCGCCTCAGATGTCTTCTCTTGGTTCTCTCAATCCAAACGTTGTTACATTAAAATTACCTTCCGGAGTTTCTCGATCTTCTTCCATGGATCTAATTCCGTTATGCTTCCTTCCATTGCAGCTCCCCTGTACGTGGAAGATCTGGAAAATTTGCTCCATGAACAACACCTGCTTCTCTCCTTCAACACCGAGATCGAAGATGGTAGCATCGAACAGGATCTATGTTCATCAGAGAAATTAAACAATCTGCCCATTGGCCTGAAGCGAAATCCTCCGAGAATTATTGTCATCAATGTTCAAAATTGGAACTTCGTAAATGGATGA

Protein sequence

MAGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKITFRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQDLCSSEKLNNLPIGLKRNPPRIIVINVQNWNFVNG

Homology

[Close]

BLAST of Carg17422 vs. NCBI nr
Match: XP_022949537.1 (uncharacterized protein LOC111452853 [Cucurbita moschata])

HSP 1 Score: 210.3 bits (534), Expect = 4.5e-51
Identity = 108/121 (89.26%), Postives = 111/121 (91.74%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGSISSLEMAISSVFSRWDGLQMAID+KWGGGDSHQK LNLASDVFSWFSQSKRCYIKIT
Sbjct: 14  AGSISSLEMAISSVFSRWDGLQMAIDNKWGGGDSHQKSLNLASDVFSWFSQSKRCYIKIT 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQDLCSSEKL 121
           FRSFSIFFHGSNS MLPSIAAPLYVEDLENL HE HLLLSFNTE EDGSIEQ    +E L
Sbjct: 74  FRSFSIFFHGSNSAMLPSIAAPLYVEDLENLRHE-HLLLSFNTEFEDGSIEQVNSPNELL 133

Query: 122 N 123
           +
Sbjct: 134 D 133

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BLAST of Carg17422 vs. NCBI nr
Match: XP_022973690.1 (LOW QUALITY PROTEIN: pre-rRNA-processing protein TSR2 [Cucurbita maxima])

HSP 1 Score: 145.2 bits (365), Expect = 1.8e-31
Identity = 79/112 (70.54%), Postives = 84/112 (75.00%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGSISSL+MAISSVFSRWDGLQMAID+KWGGGDSHQK LNLASDVF+WFSQSKR      
Sbjct: 14  AGSISSLQMAISSVFSRWDGLQMAIDNKWGGGDSHQKSLNLASDVFTWFSQSKR------ 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                               +PLYV+DLENLLHE HLLLSFNTEIEDGSIEQ
Sbjct: 74  --------------------SPLYVDDLENLLHE-HLLLSFNTEIEDGSIEQ 98

[Close]

BLAST of Carg17422 vs. NCBI nr
Match: XP_008438673.1 (PREDICTED: pre-rRNA-processing protein TSR2 isoform X1 [Cucumis melo])

HSP 1 Score: 130.6 bits (327), Expect = 4.5e-27
Identity = 73/114 (64.04%), Postives = 79/114 (69.30%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+SSL+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSSLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSYSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQDL 116
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ +
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQQV 99

[Close]

BLAST of Carg17422 vs. NCBI nr
Match: XP_008438674.1 (PREDICTED: pre-rRNA-processing protein TSR2 homolog isoform X2 [Cucumis melo])

HSP 1 Score: 130.2 bits (326), Expect = 5.9e-27
Identity = 73/112 (65.18%), Postives = 78/112 (69.64%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+SSL+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSSLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSYSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQ 97

[Close]

BLAST of Carg17422 vs. NCBI nr
Match: XP_011650975.1 (PREDICTED: pre-rRNA-processing protein TSR2 isoform X1 [Cucumis sativus])

HSP 1 Score: 129.8 bits (325), Expect = 7.7e-27
Identity = 72/114 (63.16%), Postives = 79/114 (69.30%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+S+L+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSNLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSHSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQDL 116
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ +
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQQV 99

[Close]

BLAST of Carg17422 vs. TAIR10
Match: AT3G22510.1 (Pre-rRNA-processing protein TSR2, conserved region)

HSP 1 Score: 72.8 bits (177), Expect = 2.0e-13
Identity = 46/108 (42.59%), Postives = 58/108 (53.70%), Query Frame = 0


Query: 6   SSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKITFRSF 65
           S L+  I  + SRW GLQMA+ ++WGG DS +K   LA ++F   SQS            
Sbjct: 29  SVLQRDIGELLSRWGGLQMAVKNQWGGHDSLKKSQELAHNLFHLISQSN----------- 88

Query: 66  SIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                             + VE++ENLLHE  LLLSFNTEIEDGSIE+
Sbjct: 89  -----------------VITVEEIENLLHES-LLLSFNTEIEDGSIEE 107

[Close]

BLAST of Carg17422 vs. TrEMBL
Match: tr|A0A1S3AX32|A0A1S3AX32_CUCME (pre-rRNA-processing protein TSR2 isoform X1 OS=Cucumis melo OX=3656 GN=LOC103483709 PE=4 SV=1)

HSP 1 Score: 130.6 bits (327), Expect = 3.0e-27
Identity = 73/114 (64.04%), Postives = 79/114 (69.30%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+SSL+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSSLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSYSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQDL 116
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ +
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQQV 99

[Close]

BLAST of Carg17422 vs. TrEMBL
Match: tr|A0A1S3AWZ6|A0A1S3AWZ6_CUCME (pre-rRNA-processing protein TSR2 homolog isoform X2 OS=Cucumis melo OX=3656 GN=LOC103483709 PE=4 SV=1)

HSP 1 Score: 130.2 bits (326), Expect = 3.9e-27
Identity = 73/112 (65.18%), Postives = 78/112 (69.64%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+SSL+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSSLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSYSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQ 97

[Close]

BLAST of Carg17422 vs. TrEMBL
Match: tr|A0A0A0L7I9|A0A0A0L7I9_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G146640 PE=4 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 6.6e-27
Identity = 72/112 (64.29%), Postives = 78/112 (69.64%), Query Frame = 0


Query: 2   AGSISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKIT 61
           AGS+S+L+MAISSVFSRWDGLQMAI+++WGG DSHQK LNL SDVFSWFS SK       
Sbjct: 14  AGSVSNLQMAISSVFSRWDGLQMAIENQWGGRDSHQKSLNLVSDVFSWFSHSK------- 73

Query: 62  FRSFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                                PLYVEDLENLLHE  LLLSFNTEIEDGSIEQ
Sbjct: 74  --------------------PPLYVEDLENLLHET-LLLSFNTEIEDGSIEQ 97

[Close]

BLAST of Carg17422 vs. TrEMBL
Match: tr|D7T6Z4|D7T6Z4_VITVI (Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VIT_05s0020g03580 PE=4 SV=1)

HSP 1 Score: 102.1 bits (253), Expect = 1.1e-18
Identity = 57/106 (53.77%), Postives = 67/106 (63.21%), Query Frame = 0


Query: 8   LEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKITFRSFSI 67
           L+  IS   S+W+GLQMA+ ++WGG DSHQK L LA+D+FSWFS+SK             
Sbjct: 18  LQDGISRHLSQWNGLQMAVQNQWGGRDSHQKSLQLAADIFSWFSESK------------- 77

Query: 68  FFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                         APL VEDLENLLHE  +LLSFNTEIEDGSIEQ
Sbjct: 78  --------------APLCVEDLENLLHES-MLLSFNTEIEDGSIEQ 95

[Close]

BLAST of Carg17422 vs. TrEMBL
Match: tr|A0A2C9UCN9|A0A2C9UCN9_MANES (Uncharacterized protein OS=Manihot esculenta OX=3983 GN=MANES_15G029600 PE=4 SV=1)

HSP 1 Score: 100.1 bits (248), Expect = 4.3e-18
Identity = 57/110 (51.82%), Postives = 69/110 (62.73%), Query Frame = 0


Query: 4   SISSLEMAISSVFSRWDGLQMAIDHKWGGGDSHQKPLNLASDVFSWFSQSKRCYIKITFR 63
           ++S L   I+ +FSRW+GLQMAI ++WGG DS QK   LA+DV SWF+QS+         
Sbjct: 17  AVSHLREGIALLFSRWNGLQMAIQNEWGGHDSLQKSHQLATDVLSWFAQSR--------- 76

Query: 64  SFSIFFHGSNSVMLPSIAAPLYVEDLENLLHEQHLLLSFNTEIEDGSIEQ 114
                              PLYVEDLENLLHE +LLLSFNTEIEDGSIE+
Sbjct: 77  ------------------GPLYVEDLENLLHE-NLLLSFNTEIEDGSIEE 98

The following BLAST results are available for this feature:

BLAST of Carg17422 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022949537.1	4.5e-51	89.26	uncharacterized protein LOC111452853 [Cucurbita moschata]	[more]
XP_022973690.1	1.8e-31	70.54	LOW QUALITY PROTEIN: pre-rRNA-processing protein TSR2 [Cucurbita maxima]	[more]
XP_008438673.1	4.5e-27	64.04	PREDICTED: pre-rRNA-processing protein TSR2 isoform X1 [Cucumis melo]	[more]
XP_008438674.1	5.9e-27	65.18	PREDICTED: pre-rRNA-processing protein TSR2 homolog isoform X2 [Cucumis melo]	[more]
XP_011650975.1	7.7e-27	63.16	PREDICTED: pre-rRNA-processing protein TSR2 isoform X1 [Cucumis sativus]	[more]

BLAST of Carg17422 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G22510.1	2.0e-13	42.59	Pre-rRNA-processing protein TSR2, conserved region	[more]

BLAST of Carg17422 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Carg17422 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3AX32\|A0A1S3AX32_CUCME	3.0e-27	64.04	pre-rRNA-processing protein TSR2 isoform X1 OS=Cucumis melo OX=3656 GN=LOC103483...	[more]
tr\|A0A1S3AWZ6\|A0A1S3AWZ6_CUCME	3.9e-27	65.18	pre-rRNA-processing protein TSR2 homolog isoform X2 OS=Cucumis melo OX=3656 GN=L...	[more]
tr\|A0A0A0L7I9\|A0A0A0L7I9_CUCSA	6.6e-27	64.29	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G146640 PE=4 SV=1	[more]
tr\|D7T6Z4\|D7T6Z4_VITVI	1.1e-18	53.77	Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VIT_05s0020g03580 PE=4 SV=...	[more]
tr\|A0A2C9UCN9\|A0A2C9UCN9_MANES	4.3e-18	51.82	Uncharacterized protein OS=Manihot esculenta OX=3983 GN=MANES_15G029600 PE=4 SV=...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR019398	Pre-rRNA_process_TSR2

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:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Carg17422-RA	Carg17422-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
IPR019398	Pre-rRNA-processing protein TSR2	PFAM	PF10273	WGG	coord: 9..112 e-value: 1.2E-15 score: 57.9
IPR019398	Pre-rRNA-processing protein TSR2	PANTHER	PTHR21250	UNCHARACTERIZED	coord: 6..55
IPR019398	Pre-rRNA-processing protein TSR2	PANTHER	PTHR21250	UNCHARACTERIZED	coord: 81..113
None	No IPR available	PANTHER	PTHR21250:SF2	SUBFAMILY NOT NAMED	coord: 81..113
None	No IPR available	PANTHER	PTHR21250:SF2	SUBFAMILY NOT NAMED	coord: 6..55

Synteny

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


Gene	Orthologue	Organism	Block
Carg17422	Cla021622	Watermelon (97103) v1	carwmB0603
Carg17422	Csa3G146640	Cucumber (Chinese Long) v2	carcuB0633
Carg17422	CmaCh06G014050	Cucurbita maxima (Rimu)	carcmaB0849
Carg17422	CmoCh06G014100	Cucurbita moschata (Rifu)	carcmoB0825
Carg17422	Lsi05G016080	Bottle gourd (USVL1VR-Ls)	carlsiB551
Carg17422	Cp4.1LG08g04200	Cucurbita pepo (Zucchini)	carcpeB0861
Carg17422	CsGy3G013260	Cucumber (Gy14) v2	carcgybB0605
Carg17422	MELO3C031694.2	Melon (DHL92) v3.6.1	carmedB0616
Carg17422	CsaV3_3G013260	Cucumber (Chinese Long) v3	carcucB0640
Carg17422	Cla97C05G086310	Watermelon (97103) v2	carwmbB0631
Carg17422	Bhi01G000581	Wax gourd	carwgoB0722

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Carg17422	Silver-seed gourd	carcarB347
Carg17422	Silver-seed gourd	carcarB545
Carg17422	Cucumber (Gy14) v1	carcgyB0681
Carg17422	Cucurbita maxima (Rimu)	carcmaB0847
Carg17422	Cucurbita maxima (Rimu)	carcmaB0850
Carg17422	Cucurbita moschata (Rifu)	carcmoB0823
Carg17422	Cucurbita moschata (Rifu)	carcmoB0824
Carg17422	Cucurbita moschata (Rifu)	carcmoB0826
Carg17422	Cucurbita pepo (Zucchini)	carcpeB0857
Carg17422	Cucurbita pepo (Zucchini)	carcpeB0858
Carg17422	Cucurbita pepo (Zucchini)	carcpeB0860
Carg17422	Wild cucumber (PI 183967)	carcpiB0639
Carg17422	Bottle gourd (USVL1VR-Ls)	carlsiB550
Carg17422	Melon (DHL92) v3.5.1	carmeB0610
Carg17422	Watermelon (Charleston Gray)	carwcgB0588
Carg17422	Watermelon (Charleston Gray)	carwcgB0589
Carg17422	Watermelon (97103) v1	carwmB0604
Carg17422	Watermelon (97103) v2	carwmbB0632