Carg20090 (gene) Silver-seed gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Carg20090
Type	gene
Organism	Cucurbita argyrosperma (Silver-seed gourd)
Description	Replication factor C subunit
Location	Cucurbita_argyrosperma_scaffold_126 : 397587 .. 400079 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexonthree_prime_UTR

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

ATGGGCGGAGATGTAGTACGTTTCTGTTTTACGTTCTTTTGTTTCACTTGTTTCTCAGAATGTGTTGCGTAATCTCAACCGTCGTCCATTTTTTCGATTGACAGTCGGCCGAAGGTAGTGAAAGATTTGATGCATCAGGATGAAGTTGTTTGATTCTATGCAGAACTAACCGGTAGTTTAGGATGAGAATTTTAGAATCCGTTGTAAGAGATGACTTTGATTCTATGCAGAACTAACCGGTAGTTTAGGATGAGGATTTTAGAATCCATTGTAAGAGGTGACTTTGATTTTATGCAGAACTAACCGGTAGTTTAGGATGAGAATTTTAGAATCCGTTGTAAGAGATGACTTTGATTCTTTGCGGCTGGGGAATTAGGTTTCTTCTGCTCGTTTGTAATTTTTTTTTGGTTAAGGTGTTGTCTGAATTGTCTATCTATGAGATTTAGCAATAAATTGAAGTTGAAACGTGAAATTATAAATAAATCATGGCCTCACTATCAGCATGGTTAAATGTAAGTCATTGATTTCGGGAGGTTTTTGCTCATGGCATTCGTGATTTGCTTATTTGATAACAAAATCCTTCAATCTGCTTGGATTAATTCAAACGTTAATGCAATCATGCTTTTATAAAACATGAAATGTACTATTTGAATATCTTATTAGTTTTTATTTGATATAAAATATATCTGATATAGGAAACATTATTTAGTCCTGAACTCATACAAGTTCAGAGTTTTGGAGTTGAATGCAAGTGGTGACCGTGGGATCAATGTTGTTCGGACTAGGATTAAAGATTTTGCTGGTGTTGCAGCAAGCAGTGGTCAATGCCATGGGTAATTTTCTTAATCTTAGCTATAACATTTTCATAACATGCCTGTTATAAACTTCACACTTTTTAGAAAAGGAAAAAGAATTTAGGGGTTATCCTTGTCAACCATTCAAGATAATAATTCTGGATGAGGCTGATTCAATGACTGAAGATTCTCAGGTGTGATCACAGTCTATATTTACTCTATTATAGTTTACTATGAGTTTAGTTTTTTTTTTTTTTTTCTTTTTTTTCACGTTTCCTAATATTGAACATTATGTAGAATGCCCTGAGGCATCCCATGGAAGCATACTCCAAAGTGACATGATTCTTTCTTATATGCAACTATATCAGCAGGTGAAGCCTAGCTTCCTTCTTATTGTTTCAAAATCTCTCTTTATTTTTGTAGAGTTTTCTATCTAAATTTTTGTAATTTTGTTTTTGATGTTGGCAGTCTCCAATTTATTGCTGTTGATTCTTTTTTTGGATTTGCGCTTTTGATATTTATGACAGTCTTCAACCTCTTATGGAGTAAATTAACAACCATAGCTCATAAGATGTTTGCGTTTTAAAGCCACATATGAAAGAGCATTGGGAGACTTGGTGGTAATTTACTAATGTTAAAATCATAATAGTTTTTAACCAGATTTCAATATAATTGTCTTCAAAGCGTATAGGAGTCTAACTTTAATAACAATTGGGCGTGAAATCTCCATATAAATGAGAAATAGGGAGGGAGAGGAGAGGATTTTCATCTAGGGACGGAGATTATATTCTCCATCCTGATCCCATATAAATGAGAAATAGGGAGGGAGAGGAGAGGATTTTCATCTAGGGACGGAGATTATATTCTCCATCCTGATCCCTGCCCTTGCCTCACCCCTAACATAGGTAATACATACATTATTTCAGTAAATGAATAGTTACATTTTTTTTTTTTAAATGTTGAAGACTATTTTGTGATTTGAAATTTGAATTTTTAGTAATGAGGTAGAATATTATTTATATTATCCGTTAAAAACTTATTTGAAGTGTATATTAAAAAATGGAAAGAAAAAAAAGTCCCATGAAAATTCTGACCCCTATGGACAATCTCCATCTTGGTCCCATCGAAAATTTTCATTTATTTTTGCCTATTTCGTGGACATCTCTTCATACGAGTACAATAACATTAAATCAAGGTTTGACATTCTCAATCTTATGTTTTGTTTTTATGGCGGCATGCACACTATTGCATATATTTTTGCAATATTTGTTCAATATATGAAATGTTAATCTAATTGTGCAGTGCATTCTATATCGTTTTCGTTTGAATCATTTGAATTTTTTGAATACTGGAAACTGGTTTTTTTAGCGTTCATAATTTCTACAATAGTCTATTATCCATCTCAGTGTTTTTTTCCATCTCGCAGGATTGTGGAGCTCCCTTACATCGAAGTCTACAAAAGTTCAGGTTTAGAGGTTTAAGCCACTCTCTTGTAATTTTAATAATTTTCGCATTTGTTCATGCACTCAAAGGCAGGGTAGTATCAAGAATTGACGAACTATAATTGCTCTTTAATTAGTTAGTAGTTAGCGGATTAATCATAATTATTATCATAATCATAGGCAGTGTTTGGATTTAGTTGCTATTTTAGTGCGTTTTGATGAATAATAAATATAATTTGTTTGTCAAAGATAACTTT

mRNA sequence

ATGGGCGGAGATGTATTCAGAGTTTTGGAGTTGAATGCAAGTGGTGACCGTGGGATCAATGTTGTTCGGACTAGGATTAAAGATTTTGCTGGTGTTGCAGCAAGCAGTGGTCAATGCCATGGGATTGTGGAGCTCCCTTACATCGAAGTCTACAAAAGTTCAGGTTTAGAGGTTTAAGCCACTCTCTTGTAATTTTAATAATTTTCGCATTTGTTCATGCACTCAAAGGCAGGGTAGTATCAAGAATTGACGAACTATAATTGCTCTTTAATTAGTTAGTAGTTAGCGGATTAATCATAATTATTATCATAATCATAGGCAGTGTTTGGATTTAGTTGCTATTTTAGTGCGTTTTGATGAATAATAAATATAATTTGTTTGTCAAAGATAACTTT

Coding sequence (CDS)

ATGGGCGGAGATGTATTCAGAGTTTTGGAGTTGAATGCAAGTGGTGACCGTGGGATCAATGTTGTTCGGACTAGGATTAAAGATTTTGCTGGTGTTGCAGCAAGCAGTGGTCAATGCCATGGGATTGTGGAGCTCCCTTACATCGAAGTCTACAAAAGTTCAGGTTTAGAGGTTTAA

Protein sequence

MGGDVFRVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVELPYIEVYKSSGLEV

Homology

[Close]

BLAST of Carg20090 vs. NCBI nr
Match: XP_024450512.1 (replication factor C subunit 2 isoform X1 [Populus trichocarpa])

HSP 1 Score: 61.6 bits (148), Expect = 1.0e-06
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 0


Query: 8  VLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
          VLELNA  DRGINVV+TRIKDFA VA  SGQC GI+E
Sbjct: 24 VLELNARDDRGINVVQTRIKDFAAVAVGSGQCQGIIE 60

[Close]

BLAST of Carg20090 vs. NCBI nr
Match: XP_024450524.1 (replication factor C subunit 2 isoform X8 [Populus trichocarpa])

HSP 1 Score: 61.6 bits (148), Expect = 1.0e-06
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 0


Query: 8  VLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
          VLELNA  DRGINVV+TRIKDFA VA  SGQC GI+E
Sbjct: 24 VLELNARDDRGINVVQTRIKDFAAVAVGSGQCQGIIE 60

[Close]

BLAST of Carg20090 vs. NCBI nr
Match: XP_024450514.1 (replication factor C subunit 2 isoform X3 [Populus trichocarpa])

HSP 1 Score: 61.6 bits (148), Expect = 1.0e-06
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 0


Query: 8  VLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
          VLELNA  DRGINVV+TRIKDFA VA  SGQC GI+E
Sbjct: 2  VLELNARDDRGINVVQTRIKDFAAVAVGSGQCQGIIE 38

[Close]

BLAST of Carg20090 vs. NCBI nr
Match: XP_024450513.1 (replication factor C subunit 2 isoform X2 [Populus trichocarpa])

HSP 1 Score: 61.6 bits (148), Expect = 1.0e-06
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 0


Query: 8  VLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
          VLELNA  DRGINVV+TRIKDFA VA  SGQC GI+E
Sbjct: 9  VLELNARDDRGINVVQTRIKDFAAVAVGSGQCQGIIE 45

[Close]

BLAST of Carg20090 vs. NCBI nr
Match: XP_024450517.1 (replication factor C subunit 2 isoform X5 [Populus trichocarpa] >XP_024450518.1 replication factor C subunit 2 isoform X5 [Populus trichocarpa] >XP_024450519.1 replication factor C subunit 2 isoform X5 [Populus trichocarpa] >XP_024450520.1 replication factor C subunit 2 isoform X5 [Populus trichocarpa])

HSP 1 Score: 61.6 bits (148), Expect = 1.0e-06
Identity = 29/37 (78.38%), Postives = 31/37 (83.78%), Query Frame = 0


Query: 8  VLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
          VLELNA  DRGINVV+TRIKDFA VA  SGQC GI+E
Sbjct: 24 VLELNARDDRGINVVQTRIKDFAAVAVGSGQCQGIIE 60

[Close]

BLAST of Carg20090 vs. TAIR10
Match: AT1G21690.3 (ATPase family associated with various cellular activities (AAA) )

HSP 1 Score: 51.2 bits (121), Expect = 2.5e-07
Identity = 25/30 (83.33%), Postives = 26/30 (86.67%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASS 37
           RVLELNAS DRGINVVRT+IKDFA VA  S
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGS 104

[Close]

BLAST of Carg20090 vs. Swiss-Prot
Match: sp|Q9FXM3|RFC2_ORYSJ (Replication factor C subunit 2 OS=Oryza sativa subsp. japonica OX=39947 GN=RFC2 PE=2 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 6.8e-07
Identity = 28/41 (68.29%), Postives = 30/41 (73.17%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVELPY 48
           RVLELNAS DRGINVVRT+IKDFA VA  S +  G    PY
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGSARKGGYPCPPY 115

[Close]

BLAST of Carg20090 vs. Swiss-Prot
Match: sp|Q93ZX1|RFC4_ARATH (Replication factor C subunit 4 OS=Arabidopsis thaliana OX=3702 GN=RFC4 PE=2 SV=1)

HSP 1 Score: 51.2 bits (121), Expect = 4.4e-06
Identity = 25/30 (83.33%), Postives = 26/30 (86.67%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASS 37
           RVLELNAS DRGINVVRT+IKDFA VA  S
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGS 104

[Close]

BLAST of Carg20090 vs. Swiss-Prot
Match: sp|Q54MD4|RFC4_DICDI (Probable replication factor C subunit 4 OS=Dictyostelium discoideum OX=44689 GN=rfc4 PE=3 SV=1)

HSP 1 Score: 44.7 bits (104), Expect = 4.2e-04
Identity = 21/29 (72.41%), Postives = 25/29 (86.21%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAAS 36
           RVLELNAS +RGI VVRT+IK+FAG A +
Sbjct: 76  RVLELNASDERGIEVVRTKIKNFAGYAVN 104

[Close]

BLAST of Carg20090 vs. TrEMBL
Match: tr|A0A2N9FCL1|A0A2N9FCL1_FAGSY (Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS12835 PE=4 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 8.7e-07
Identity = 30/38 (78.95%), Postives = 32/38 (84.21%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVE 45
           RVLELNAS DRGINVVRT+IKDFA VA  SGQ  GI+E
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGSGQRQGIIE 112

[Close]

BLAST of Carg20090 vs. TrEMBL
Match: tr|A0A1S3B9T6|A0A1S3B9T6_CUCME (LOW QUALITY PROTEIN: replication factor C subunit 4 OS=Cucumis melo OX=3656 GN=LOC103487609 PE=4 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 8.7e-07
Identity = 31/44 (70.45%), Postives = 34/44 (77.27%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVELPYIEV 51
           RVLELNAS DRGINVVRT+IKDFAGVA SSGQ  G    P  ++
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAGVAVSSGQRQGGYPCPPFKI 118

[Close]

BLAST of Carg20090 vs. TrEMBL
Match: tr|A0A0A0KYI8|A0A0A0KYI8_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G361280 PE=4 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 8.7e-07
Identity = 31/44 (70.45%), Postives = 34/44 (77.27%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVELPYIEV 51
           RVLELNAS DRGINVVRT+IKDFAGVA SSGQ  G    P  ++
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAGVAVSSGQRQGGYPCPPFKI 118

[Close]

BLAST of Carg20090 vs. TrEMBL
Match: tr|B9H7I3|B9H7I3_POPTR (Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_005G181300v3 PE=4 SV=1)

HSP 1 Score: 59.7 bits (143), Expect = 2.5e-06
Identity = 29/40 (72.50%), Postives = 31/40 (77.50%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIVELP 47
           RVLELNAS DRGINVVRT+IKDFA VA  SGQ  G+   P
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGSGQRQGVYPCP 114

[Close]

BLAST of Carg20090 vs. TrEMBL
Match: tr|A0A2I4H977|A0A2I4H977_9ROSI (replication factor C subunit 4-like OS=Juglans regia OX=51240 GN=LOC109014653 PE=4 SV=1)

HSP 1 Score: 57.8 bits (138), Expect = 9.6e-06
Identity = 29/37 (78.38%), Postives = 30/37 (81.08%), Query Frame = 0


Query: 7   RVLELNASGDRGINVVRTRIKDFAGVAASSGQCHGIV 44
           RVLELNAS DRGINVVRT+IKDFA VA  SGQ  G V
Sbjct: 75  RVLELNASDDRGINVVRTKIKDFAAVAVGSGQRQGCV 111

The following BLAST results are available for this feature:

BLAST of Carg20090 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_024450512.1	1.0e-06	78.38	replication factor C subunit 2 isoform X1 [Populus trichocarpa]	[more]
XP_024450524.1	1.0e-06	78.38	replication factor C subunit 2 isoform X8 [Populus trichocarpa]	[more]
XP_024450514.1	1.0e-06	78.38	replication factor C subunit 2 isoform X3 [Populus trichocarpa]	[more]
XP_024450513.1	1.0e-06	78.38	replication factor C subunit 2 isoform X2 [Populus trichocarpa]	[more]
XP_024450517.1	1.0e-06	78.38	replication factor C subunit 2 isoform X5 [Populus trichocarpa] >XP_024450518.1 ...	[more]

BLAST of Carg20090 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G21690.3	2.5e-07	83.33	ATPase family associated with various cellular activities (AAA)	[more]

BLAST of Carg20090 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9FXM3\|RFC2_ORYSJ	6.8e-07	68.29	Replication factor C subunit 2 OS=Oryza sativa subsp. japonica OX=39947 GN=RFC2 ...	[more]
sp\|Q93ZX1\|RFC4_ARATH	4.4e-06	83.33	Replication factor C subunit 4 OS=Arabidopsis thaliana OX=3702 GN=RFC4 PE=2 SV=1	[more]
sp\|Q54MD4\|RFC4_DICDI	4.2e-04	72.41	Probable replication factor C subunit 4 OS=Dictyostelium discoideum OX=44689 GN=...	[more]

BLAST of Carg20090 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A2N9FCL1\|A0A2N9FCL1_FAGSY	8.7e-07	78.95	Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS12835 PE=4 SV=1	[more]
tr\|A0A1S3B9T6\|A0A1S3B9T6_CUCME	8.7e-07	70.45	LOW QUALITY PROTEIN: replication factor C subunit 4 OS=Cucumis melo OX=3656 GN=L...	[more]
tr\|A0A0A0KYI8\|A0A0A0KYI8_CUCSA	8.7e-07	70.45	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G361280 PE=4 SV=1	[more]
tr\|B9H7I3\|B9H7I3_POPTR	2.5e-06	72.50	Uncharacterized protein OS=Populus trichocarpa OX=3694 GN=POPTR_005G181300v3 PE=...	[more]
tr\|A0A2I4H977\|A0A2I4H977_9ROSI	9.6e-06	78.38	replication factor C subunit 4-like OS=Juglans regia OX=51240 GN=LOC109014653 PE...	[more]

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
molecular_function	GO:0005524	ATP binding

Relationships

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


Feature Name	Unique Name	Type
Carg20090-RA	Carg20090-RA	mRNA

Synteny

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


Gene	Orthologue	Organism	Block
Carg20090	Bhi09G002269	Wax gourd	carwgoB1225

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


Gene	Paralogue	Organism	Block
Carg20090	Carg00318	Silver-seed gourd	carcarB574

The following block(s) are covering this gene:


Gene	Organism	Block
Carg20090	Cucumber (Gy14) v2	carcgybB1027
Carg20090	Cucumber (Gy14) v2	carcgybB1030
Carg20090	Cucurbita maxima (Rimu)	carcmaB1445
Carg20090	Cucurbita maxima (Rimu)	carcmaB1446
Carg20090	Cucurbita moschata (Rifu)	carcmoB1399
Carg20090	Cucurbita moschata (Rifu)	carcmoB1400
Carg20090	Cucurbita pepo (Zucchini)	carcpeB1455
Carg20090	Cucurbita pepo (Zucchini)	carcpeB1454
Carg20090	Wild cucumber (PI 183967)	carcpiB1080
Carg20090	Cucumber (Chinese Long) v2	carcuB1058
Carg20090	Cucumber (Chinese Long) v2	carcuB1061
Carg20090	Cucumber (Chinese Long) v3	carcucB1091
Carg20090	Cucumber (Chinese Long) v3	carcucB1094
Carg20090	Melon (DHL92) v3.5.1	carmeB1012
Carg20090	Melon (DHL92) v3.6.1	carmedB1024
Carg20090	Watermelon (Charleston Gray)	carwcgB1018
Carg20090	Watermelon (97103) v1	carwmB1046
Carg20090	Watermelon (97103) v2	carwmbB1104