CsaV3_5G018940 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_5G018940
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	DNA topoisomerase 2-binding protein 1
Location	chr5 : 14422178 .. 14423342 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonpolypeptideCDS

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

GGAGCTAATGTGTTCGTCTCTCGTAATCTTGTCGCTCCAGAGATGTTCGATGCTTTTCACGACGCTCTCAAGCAGAATGGGGCGAAGGCTTCCTCTGTTGCGATCCCTCTCAAAACGCCCCTAACGACTATCATGTTATCTTCTCCGCCGATCACGTACGAAACGTCTCATCGATTTCTTGTTCAATTTATATGGCTACTCGGATTGGCGATGTGTTTATTGGTTGTTGATTCCTTCTTTCAGGCAAAGTTCGAGGATCTTCGCGCCAAGGGCTGCAACTTGTTAGGTATAGTTAATTTGTAGTTCCAGCCTTTTCTTTCTTTCTTTTGCGGAATAGAATTGGAGAGAAATTTTCGATTGGAGAATGAGATTAACAGGAAATTGAATGTCTCAATTAATTTGTCAAATGTATAGTTACCGAATTGCAGCTAATATTTGTCAGTGCATGCTGCATGTACGCAATAGCCGAGTAATATATACTTCACTGCTCTCTCTTTCCGAATAGCCAAACCTAGTTGTTTGAAATTCTCATTTCAGTCCGACGCCGGGGATTTGGTGCGTCGCTGACAACATGAATTTCTGTTGGGAAGGTCCTCAGTGCGTGATGTCATGTGCAAAAAGAGCACAGACCTCTTCCTCAACAGGGTTGTACTTGCTGCCTTGCCATGGATGGTGTGAAAATCTTGGCATCCGGTTTTCAAGAAGATGAAAAGGTACGTTGCAAATGTTCCTAGTCCACCCATCTTTTTTCTTATTAGTAATTAGTAATTTTATTTTTGTAGAACTAATGACACAAAGTTGCATTGCAGGTTGAGATAGGGAAGTTAGTTAGTGCAATGGGGGAAGTATTGCATACGAAAGCATTACTAGATGTCAGTTTTGTTATCGCGAAGAATGCTTTGGCTGCGAAATACAAGGTCATGTTGCTTGAACTTTCGATTTTCTTGACGTGATATGTATGTGTATTTAGACCATTTCATGAATATCACGTGAATCATAAGATTTGAGTCAATTAAACTCCACAAAATTCATTTTTCAATCAA

mRNA sequence

ATGGATGGTGTGAAAATCTTGGCATCCGGTTTTCAAGAAGATGAAAAGGTTGAGATAGGGAAGTTAGTTAGTGCAATGGGGGAAGTATTGCATACGAAAGCATTACTAGATGTCAGTTTTGTTATCGCGAAGAATGCTTTGGCTGCGAAATACAAGGTCATGTTGCTTGAACTTTCGATTTTCTTGACGTGA

Coding sequence (CDS)

ATGGATGGTGTGAAAATCTTGGCATCCGGTTTTCAAGAAGATGAAAAGGTTGAGATAGGGAAGTTAGTTAGTGCAATGGGGGAAGTATTGCATACGAAAGCATTACTAGATGTCAGTTTTGTTATCGCGAAGAATGCTTTGGCTGCGAAATACAAGGTCATGTTGCTTGAACTTTCGATTTTCTTGACGTGA

Protein sequence

MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYKVMLLELSIFLT

Homology

[Close]

BLAST of CsaV3_5G018940 vs. NCBI nr
Match: KGN54540.1 (hypothetical protein Csa_4G359270 [Cucumis sativus])

HSP 1 Score: 94.7 bits (234), Expect = 1.2e-16
Identity = 50/52 (96.15%), Postives = 50/52 (96.15%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEKVEIGKLVSAMG VLHTKA LDVSFVIAKNALAAKYK
Sbjct: 56  MDGVKILASGFQEDEKVEIGKLVSAMGGVLHTKASLDVSFVIAKNALAAKYK 107

[Close]

BLAST of CsaV3_5G018940 vs. NCBI nr
Match: XP_011653777.1 (PREDICTED: uncharacterized protein LOC101212525 [Cucumis sativus])

HSP 1 Score: 94.7 bits (234), Expect = 1.2e-16
Identity = 50/52 (96.15%), Postives = 50/52 (96.15%), Query Frame = 0


Query: 1  MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
          MDGVKILASGFQEDEKVEIGKLVSAMG VLHTKA LDVSFVIAKNALAAKYK
Sbjct: 48 MDGVKILASGFQEDEKVEIGKLVSAMGGVLHTKASLDVSFVIAKNALAAKYK 99

[Close]

BLAST of CsaV3_5G018940 vs. NCBI nr
Match: XP_016899869.1 (PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X1 [Cucumis melo] >XP_016899870.1 PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X1 [Cucumis melo])

HSP 1 Score: 90.9 bits (224), Expect = 1.7e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 100 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 151

[Close]

BLAST of CsaV3_5G018940 vs. NCBI nr
Match: XP_016899871.1 (PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X2 [Cucumis melo] >XP_016899872.1 PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X2 [Cucumis melo])

HSP 1 Score: 90.9 bits (224), Expect = 1.7e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 100 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 151

[Close]

BLAST of CsaV3_5G018940 vs. NCBI nr
Match: XP_008444202.1 (PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X3 [Cucumis melo])

HSP 1 Score: 90.9 bits (224), Expect = 1.7e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1  MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
          MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 48 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 99

[Close]

BLAST of CsaV3_5G018940 vs. TAIR10
Match: AT1G77320.1 (transcription coactivators)

HSP 1 Score: 65.9 bits (159), Expect = 1.1e-11
Identity = 34/52 (65.38%), Postives = 43/52 (82.69%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDG+K+LASGF  DEKV+I +LV++MG VL ++A  DV+FVI KN LAAKYK
Sbjct: 100 MDGLKVLASGFLVDEKVKIKELVTSMGGVLLSRASSDVNFVIVKNVLAAKYK 151

[Close]

BLAST of CsaV3_5G018940 vs. TrEMBL
Match: tr|A0A0A0KY49|A0A0A0KY49_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G359270 PE=4 SV=1)

HSP 1 Score: 94.7 bits (234), Expect = 7.8e-17
Identity = 50/52 (96.15%), Postives = 50/52 (96.15%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEKVEIGKLVSAMG VLHTKA LDVSFVIAKNALAAKYK
Sbjct: 56  MDGVKILASGFQEDEKVEIGKLVSAMGGVLHTKASLDVSFVIAKNALAAKYK 107

[Close]

BLAST of CsaV3_5G018940 vs. TrEMBL
Match: tr|A0A1S4DV57|A0A1S4DV57_CUCME (DNA topoisomerase 2-binding protein 1 isoform X1 OS=Cucumis melo OX=3656 GN=LOC103487611 PE=4 SV=1)

HSP 1 Score: 90.9 bits (224), Expect = 1.1e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 100 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 151

[Close]

BLAST of CsaV3_5G018940 vs. TrEMBL
Match: tr|A0A1S4DV59|A0A1S4DV59_CUCME (DNA topoisomerase 2-binding protein 1 isoform X2 OS=Cucumis melo OX=3656 GN=LOC103487611 PE=4 SV=1)

HSP 1 Score: 90.9 bits (224), Expect = 1.1e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 100 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 151

[Close]

BLAST of CsaV3_5G018940 vs. TrEMBL
Match: tr|A0A1S3BAL1|A0A1S3BAL1_CUCME (DNA topoisomerase 2-binding protein 1 isoform X3 OS=Cucumis melo OX=3656 GN=LOC103487611 PE=4 SV=1)

HSP 1 Score: 90.9 bits (224), Expect = 1.1e-15
Identity = 48/52 (92.31%), Postives = 49/52 (94.23%), Query Frame = 0


Query: 1  MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
          MDGVKILASGFQEDEK EIGKLVSAMG VL+TKA LDVSFVIAKNALAAKYK
Sbjct: 48 MDGVKILASGFQEDEKAEIGKLVSAMGGVLYTKASLDVSFVIAKNALAAKYK 99

[Close]

BLAST of CsaV3_5G018940 vs. TrEMBL
Match: tr|A0A1S4A7Z6|A0A1S4A7Z6_TOBAC (DNA topoisomerase 2-binding protein 1 OS=Nicotiana tabacum OX=4097 GN=LOC107794754 PE=4 SV=1)

HSP 1 Score: 87.0 bits (214), Expect = 1.6e-14
Identity = 45/52 (86.54%), Postives = 47/52 (90.38%), Query Frame = 0


Query: 1   MDGVKILASGFQEDEKVEIGKLVSAMGEVLHTKALLDVSFVIAKNALAAKYK 53
           MDGVKILASGF+ DEKVE+GKLVSAMG VLHTKA LDVSFVI KN LAAKYK
Sbjct: 100 MDGVKILASGFEMDEKVELGKLVSAMGGVLHTKASLDVSFVIVKNVLAAKYK 151

The following BLAST results are available for this feature:

BLAST of CsaV3_5G018940 vs. NCBI nr


Match Name	E-value	Identity	Description
KGN54540.1	1.2e-16	96.15	hypothetical protein Csa_4G359270 [Cucumis sativus]	[more]
XP_011653777.1	1.2e-16	96.15	PREDICTED: uncharacterized protein LOC101212525 [Cucumis sativus]	[more]
XP_016899869.1	1.7e-15	92.31	PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X1 [Cucumis melo] >XP_0...	[more]
XP_016899871.1	1.7e-15	92.31	PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X2 [Cucumis melo] >XP_0...	[more]
XP_008444202.1	1.7e-15	92.31	PREDICTED: DNA topoisomerase 2-binding protein 1 isoform X3 [Cucumis melo]	[more]

BLAST of CsaV3_5G018940 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G77320.1	1.1e-11	65.38	transcription coactivators	[more]

BLAST of CsaV3_5G018940 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_5G018940 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0KY49\|A0A0A0KY49_CUCSA	7.8e-17	96.15	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_4G359270 PE=4 SV=1	[more]
tr\|A0A1S4DV57\|A0A1S4DV57_CUCME	1.1e-15	92.31	DNA topoisomerase 2-binding protein 1 isoform X1 OS=Cucumis melo OX=3656 GN=LOC1...	[more]
tr\|A0A1S4DV59\|A0A1S4DV59_CUCME	1.1e-15	92.31	DNA topoisomerase 2-binding protein 1 isoform X2 OS=Cucumis melo OX=3656 GN=LOC1...	[more]
tr\|A0A1S3BAL1\|A0A1S3BAL1_CUCME	1.1e-15	92.31	DNA topoisomerase 2-binding protein 1 isoform X3 OS=Cucumis melo OX=3656 GN=LOC1...	[more]
tr\|A0A1S4A7Z6\|A0A1S4A7Z6_TOBAC	1.6e-14	86.54	DNA topoisomerase 2-binding protein 1 OS=Nicotiana tabacum OX=4097 GN=LOC1077947...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR036420	BRCT_dom_sf
IPR001357	BRCT_dom

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
CsaV3_5G018940.1	CsaV3_5G018940.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001357	BRCT domain	PFAM	PF12738	PTCB-BRCT	coord: 4..53 e-value: 4.0E-5 score: 23.4
IPR036420	BRCT domain superfamily	GENE3D	G3DSA:3.40.50.10190		coord: 1..60 e-value: 1.1E-5 score: 27.5

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_5G018940	Silver-seed gourd	carcucB0515
CsaV3_5G018940	Silver-seed gourd	carcucB0866
CsaV3_5G018940	Cucumber (Gy14) v2	cgybcucB232
CsaV3_5G018940	Cucurbita maxima (Rimu)	cmacucB0356
CsaV3_5G018940	Cucurbita maxima (Rimu)	cmacucB0864
CsaV3_5G018940	Cucurbita moschata (Rifu)	cmocucB0351
CsaV3_5G018940	Cucurbita moschata (Rifu)	cmocucB0850
CsaV3_5G018940	Cucurbita pepo (Zucchini)	cpecucB0213
CsaV3_5G018940	Cucurbita pepo (Zucchini)	cpecucB0522
CsaV3_5G018940	Bottle gourd (USVL1VR-Ls)	cuclsiB346
CsaV3_5G018940	Melon (DHL92) v3.5.1	cucmeB361
CsaV3_5G018940	Melon (DHL92) v3.6.1	cucmedB353
CsaV3_5G018940	Watermelon (Charleston Gray)	cucwcgB386
CsaV3_5G018940	Watermelon (97103) v1	cucwmB434
CsaV3_5G018940	Wax gourd	cucwgoB450