CSPI02G16460 (gene) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI02G16460
Type	gene
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	DNA-binding BIN4-like protein
Location	Chr2 : 15857759 .. 15858843 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDSthree_prime_UTR

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

TATTTTATATTAATGATAATATAGTACTGGAAATTTCTACTATCAATTCTGTTTTTGGATGGTCACTTCGTTTTAAATTTTAAGCACTCCCCTTTGTTTTGTTTTGGTTTGCGTTATTTTTTTAGTACAATGTCCTAGAACTGCCATAGAAGTCATGACTTGTTGGACGTATGTTACTTGATCAGATAGAATCTATCATGAACGATTTCATTCAGTTGAAGGCACTGTCCAAAGTTGATGAGGCTGAAACTATGGTTGAAGGTGAGTTGCTTTCTATTTCTCTGAATTTTTCAAAGTTGCTTGTTTCTGTGCTCATTCTATGTTTTGCATCTGTAGGCACATTAGATGGATTCTCGTTTGATTCTGAAGACGACGCTGAGAAAATAACTAAAGCTGCTTCTCCAGCTGACCAAAATGAGCCGGTAGAAGGGCTCAACACAAAATCCAAAAACAAAGCCGAGAAATCATCAGTATGTTCCTACGTCCAATTGCATGTAGTATCTTAACGATCCATCTTTCGTTCATGCTTATGCTCTGGAAATGTCATTTTAGGGGCGGAAGCGTGTTAAAACTGGAGGAAGGCTGCAGGCTCCGAAGAAAACAAGGAAGAAAGTTCAAGGTTCTAAAACTAAAAATGCAAAAAGCAAGAAATGAAGTTCGAAATCTTTGTTTGCCCTGAAAAGGGAAAGCCCTTTCGTCTGAATGTAAGAGGCAAATGGGGGCTTTAGCCAACCTGCTTGAAACAACATTTTCTTTCTCCGGTTCACCTCTCTGACTAGAAGTTTAGAGCCTTTTTTATAAAGTTTTTT

mRNA sequence

ATGTTACTTGATCAGATAGAATCTATCATGAACGATTTCATTCAGTTGAAGGCACTGTCCAAAGTTGATGAGGCTGAAACTATGGTTGAAGGCACATTAGATGGATTCTCGTTTGATTCTGAAGACGACGCTGAGAAAATAACTAAAGCTGCTTCTCCAGCTGACCAAAATGAGCCGGTAGAAGGGCTCAACACAAAATCCAAAAACAAAGCCGAGAAATCATCAGGGCGGAAGCGTGTTAAAACTGGAGGAAGGCTGCAGGCTCCGAAGAAAACAAGGAAGAAAGTTCAAGGTTCTAAAACTAAAAATGCAAAAAGCAAGAAATGA

Coding sequence (CDS)

ATGTTACTTGATCAGATAGAATCTATCATGAACGATTTCATTCAGTTGAAGGCACTGTCCAAAGTTGATGAGGCTGAAACTATGGTTGAAGGCACATTAGATGGATTCTCGTTTGATTCTGAAGACGACGCTGAGAAAATAACTAAAGCTGCTTCTCCAGCTGACCAAAATGAGCCGGTAGAAGGGCTCAACACAAAATCCAAAAACAAAGCCGAGAAATCATCAGGGCGGAAGCGTGTTAAAACTGGAGGAAGGCTGCAGGCTCCGAAGAAAACAAGGAAGAAAGTTCAAGGTTCTAAAACTAAAAATGCAAAAAGCAAGAAATGA

Homology

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BLAST of CSPI02G16460 vs. Swiss-Prot
Match: BIN4_ARATH (DNA-binding protein BIN4 OS=Arabidopsis thaliana GN=BIN4 PE=1 SV=2)

HSP 1 Score: 60.8 bits (146), Expect = 9.5e-09
Identity = 51/105 (48.57%), Postives = 63/105 (60.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPV-EGLNTKS 60
           MNDFIQL   S V EAETMVEGTL+GF+F+S+D++ K  K A  PADQ+    E  NTK+
Sbjct: 353 MNDFIQLIPQSNVYEAETMVEGTLEGFTFESDDESNKNAKTAVKPADQSVGTEEETNTKA 412

Query: 61  KNKA----EKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           K KA    E   G+KR +     Q P    KK + S  K  K+KK
Sbjct: 413 KPKAKAKGETVIGKKRGRPSKEKQPP---AKKARNSAPKKPKAKK 454

[Close]

BLAST of CSPI02G16460 vs. TrEMBL
Match: A0A0A0LJZ5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G338790 PE=4 SV=1)

HSP 1 Score: 164.1 bits (414), Expect = 8.9e-38
Identity = 89/89 (100.00%), Postives = 89/89 (100.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN
Sbjct: 282 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN 341

Query: 61  KAEKSSGRKRVKTGGRLQAPKKTRKKVQG 90
           KAEKSSGRKRVKTGGRLQAPKKTRKKVQG
Sbjct: 342 KAEKSSGRKRVKTGGRLQAPKKTRKKVQG 370

[Close]

BLAST of CSPI02G16460 vs. TrEMBL
Match: A0A0B0P690_GOSAR (DNA-binding BIN4-like protein OS=Gossypium arboreum GN=F383_24512 PE=4 SV=1)

HSP 1 Score: 87.4 bits (215), Expect = 1.1e-14
Identity = 62/101 (61.39%), Postives = 71/101 (70.30%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKA-ASPADQNEPVEG-LNTKS 60
           MNDFIQLK  S V EAETMVEGTL+GFSFDSED+AEKI KA     DQNE ++G +N KS
Sbjct: 254 MNDFIQLKPQSNVYEAETMVEGTLEGFSFDSEDEAEKIPKAIPHQTDQNEDIDGQMNGKS 313

Query: 61  KNKAEKSS--GRKRVKT-GGRLQAPKKTRKKVQGSKTKNAK 97
           K +A+K+S   RKR KT GG+ Q  KK RKK    K K  K
Sbjct: 314 KGRADKTSMVSRKRGKTGGGKSQPAKKARKKAISKKPKAKK 354

[Close]

BLAST of CSPI02G16460 vs. TrEMBL
Match: A0A0D2RYE2_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_004G126300 PE=4 SV=1)

HSP 1 Score: 86.3 bits (212), Expect = 2.4e-14
Identity = 61/101 (60.40%), Postives = 71/101 (70.30%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKA-ASPADQNEPVEG-LNTKS 60
           MNDFIQLK  S V EAETMVEGTL+GFSFDSED+AEK+ KA     DQNE ++G +N KS
Sbjct: 286 MNDFIQLKPQSNVYEAETMVEGTLEGFSFDSEDEAEKMPKAIPHQTDQNEDIDGQMNGKS 345

Query: 61  KNKAEKSS--GRKRVKT-GGRLQAPKKTRKKVQGSKTKNAK 97
           K +A+K+S   RKR KT GG+ Q  KK RKK    K K  K
Sbjct: 346 KGRADKTSMVSRKRGKTGGGKSQPAKKARKKAISKKPKAKK 386

[Close]

BLAST of CSPI02G16460 vs. TrEMBL
Match: A0A0D2R3N7_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_004G126300 PE=4 SV=1)

HSP 1 Score: 86.3 bits (212), Expect = 2.4e-14
Identity = 61/101 (60.40%), Postives = 71/101 (70.30%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKA-ASPADQNEPVEG-LNTKS 60
           MNDFIQLK  S V EAETMVEGTL+GFSFDSED+AEK+ KA     DQNE ++G +N KS
Sbjct: 202 MNDFIQLKPQSNVYEAETMVEGTLEGFSFDSEDEAEKMPKAIPHQTDQNEDIDGQMNGKS 261

Query: 61  KNKAEKSS--GRKRVKT-GGRLQAPKKTRKKVQGSKTKNAK 97
           K +A+K+S   RKR KT GG+ Q  KK RKK    K K  K
Sbjct: 262 KGRADKTSMVSRKRGKTGGGKSQPAKKARKKAISKKPKAKK 302

[Close]

BLAST of CSPI02G16460 vs. TrEMBL
Match: A0A061G2G0_THECC (Double-stranded DNA binding, putative isoform 1 OS=Theobroma cacao GN=TCM_015551 PE=4 SV=1)

HSP 1 Score: 82.4 bits (202), Expect = 3.4e-13
Identity = 58/96 (60.42%), Postives = 68/96 (70.83%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKA-ASPADQNEPVEG-LNTKS 60
           MNDFIQLK+ S V EAETMVEGTLDGFSFDSED+ +K+ K      DQNE  +G +N K+
Sbjct: 310 MNDFIQLKSQSNVCEAETMVEGTLDGFSFDSEDEIDKMPKTIPHQTDQNEGTDGQMNGKA 369

Query: 61  KNKAEKSS--GRKRVKT-GGRLQAPKKTRKKVQGSK 92
           K KA+K+S   RKR KT GG+ Q PKK  KK   SK
Sbjct: 370 KGKADKTSTASRKRGKTAGGKPQPPKKAGKKTVVSK 405

[Close]

BLAST of CSPI02G16460 vs. TAIR10
Match: AT5G24630.6 (AT5G24630.6 double-stranded DNA binding)

HSP 1 Score: 60.8 bits (146), Expect = 5.4e-10
Identity = 51/105 (48.57%), Postives = 63/105 (60.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPV-EGLNTKS 60
           MNDFIQL   S V EAETMVEGTL+GF+F+S+D++ K  K A  PADQ+    E  NTK+
Sbjct: 353 MNDFIQLIPQSNVYEAETMVEGTLEGFTFESDDESNKNAKTAVKPADQSVGTEEETNTKA 412

Query: 61  KNKA----EKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           K KA    E   G+KR +     Q P    KK + S  K  K+KK
Sbjct: 413 KPKAKAKGETVIGKKRGRPSKEKQPP---AKKARNSAPKKPKAKK 454

[Close]

BLAST of CSPI02G16460 vs. NCBI nr
Match: gi|449459184|ref|XP_004147326.1| (PREDICTED: DNA-binding protein BIN4 [Cucumis sativus])

HSP 1 Score: 178.3 bits (451), Expect = 6.5e-42
Identity = 99/99 (100.00%), Postives = 99/99 (100.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN
Sbjct: 293 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITKAASPADQNEPVEGLNTKSKN 352

Query: 61  KAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           KAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK
Sbjct: 353 KAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 391

[Close]

BLAST of CSPI02G16460 vs. NCBI nr
Match: gi|659121795|ref|XP_008460817.1| (PREDICTED: DNA-binding protein BIN4 isoform X4 [Cucumis melo])

HSP 1 Score: 169.5 bits (428), Expect = 3.0e-39
Identity = 96/100 (96.00%), Postives = 99/100 (99.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPVEGLNTKSK 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSED+AEKITK A+SPADQNEPVEGLNTKSK
Sbjct: 250 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDEAEKITKVASSPADQNEPVEGLNTKSK 309

Query: 61  NKAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           NKAEKSSGRKRVK+GGRLQAPKKTRKKVQGSKTKNAKSKK
Sbjct: 310 NKAEKSSGRKRVKSGGRLQAPKKTRKKVQGSKTKNAKSKK 349

[Close]

BLAST of CSPI02G16460 vs. NCBI nr
Match: gi|659121793|ref|XP_008460816.1| (PREDICTED: DNA-binding protein BIN4 isoform X3 [Cucumis melo])

HSP 1 Score: 169.5 bits (428), Expect = 3.0e-39
Identity = 96/100 (96.00%), Postives = 99/100 (99.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPVEGLNTKSK 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSED+AEKITK A+SPADQNEPVEGLNTKSK
Sbjct: 272 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDEAEKITKVASSPADQNEPVEGLNTKSK 331

Query: 61  NKAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           NKAEKSSGRKRVK+GGRLQAPKKTRKKVQGSKTKNAKSKK
Sbjct: 332 NKAEKSSGRKRVKSGGRLQAPKKTRKKVQGSKTKNAKSKK 371

[Close]

BLAST of CSPI02G16460 vs. NCBI nr
Match: gi|659121791|ref|XP_008460815.1| (PREDICTED: DNA-binding protein BIN4 isoform X2 [Cucumis melo])

HSP 1 Score: 169.5 bits (428), Expect = 3.0e-39
Identity = 96/100 (96.00%), Postives = 99/100 (99.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPVEGLNTKSK 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSED+AEKITK A+SPADQNEPVEGLNTKSK
Sbjct: 293 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDEAEKITKVASSPADQNEPVEGLNTKSK 352

Query: 61  NKAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           NKAEKSSGRKRVK+GGRLQAPKKTRKKVQGSKTKNAKSKK
Sbjct: 353 NKAEKSSGRKRVKSGGRLQAPKKTRKKVQGSKTKNAKSKK 392

[Close]

BLAST of CSPI02G16460 vs. NCBI nr
Match: gi|659121789|ref|XP_008460814.1| (PREDICTED: DNA-binding protein BIN4 isoform X1 [Cucumis melo])

HSP 1 Score: 169.5 bits (428), Expect = 3.0e-39
Identity = 96/100 (96.00%), Postives = 99/100 (99.00%), Query Frame = 1


Query: 1   MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDDAEKITK-AASPADQNEPVEGLNTKSK 60
           MNDFIQLKALSKVDEAETMVEGTLDGFSFDSED+AEKITK A+SPADQNEPVEGLNTKSK
Sbjct: 308 MNDFIQLKALSKVDEAETMVEGTLDGFSFDSEDEAEKITKVASSPADQNEPVEGLNTKSK 367

Query: 61  NKAEKSSGRKRVKTGGRLQAPKKTRKKVQGSKTKNAKSKK 100
           NKAEKSSGRKRVK+GGRLQAPKKTRKKVQGSKTKNAKSKK
Sbjct: 368 NKAEKSSGRKRVKSGGRLQAPKKTRKKVQGSKTKNAKSKK 407

The following BLAST results are available for this feature:

BLAST of CSPI02G16460 vs. Swiss-Prot


Match Name	E-value	Identity	Description
BIN4_ARATH	9.5e-09	48.57	DNA-binding protein BIN4 OS=Arabidopsis thaliana GN=BIN4 PE=1 SV=2	[more]

BLAST of CSPI02G16460 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LJZ5_CUCSA	8.9e-38	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G338790 PE=4 SV=1	[more]
A0A0B0P690_GOSAR	1.1e-14	61.39	DNA-binding BIN4-like protein OS=Gossypium arboreum GN=F383_24512 PE=4 SV=1	[more]
A0A0D2RYE2_GOSRA	2.4e-14	60.40	Uncharacterized protein OS=Gossypium raimondii GN=B456_004G126300 PE=4 SV=1	[more]
A0A0D2R3N7_GOSRA	2.4e-14	60.40	Uncharacterized protein OS=Gossypium raimondii GN=B456_004G126300 PE=4 SV=1	[more]
A0A061G2G0_THECC	3.4e-13	60.42	Double-stranded DNA binding, putative isoform 1 OS=Theobroma cacao GN=TCM_015551...	[more]

BLAST of CSPI02G16460 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G24630.6	5.4e-10	48.57	double-stranded DNA binding	[more]

BLAST of CSPI02G16460 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449459184\|ref\|XP_004147326.1\|	6.5e-42	100.00	PREDICTED: DNA-binding protein BIN4 [Cucumis sativus]	[more]
gi\|659121795\|ref\|XP_008460817.1\|	3.0e-39	96.00	PREDICTED: DNA-binding protein BIN4 isoform X4 [Cucumis melo]	[more]
gi\|659121793\|ref\|XP_008460816.1\|	3.0e-39	96.00	PREDICTED: DNA-binding protein BIN4 isoform X3 [Cucumis melo]	[more]
gi\|659121791\|ref\|XP_008460815.1\|	3.0e-39	96.00	PREDICTED: DNA-binding protein BIN4 isoform X2 [Cucumis melo]	[more]
gi\|659121789\|ref\|XP_008460814.1\|	3.0e-39	96.00	PREDICTED: DNA-binding protein BIN4 isoform X1 [Cucumis melo]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

Vocabulary: **Molecular Function**
Term	Definition
GO:0003690	double-stranded DNA binding

Vocabulary: **Cellular Component**
Term	Definition
GO:0009330	DNA topoisomerase complex (ATP-hydrolyzing)

Vocabulary: **Biological Process**
Term	Definition
GO:0042023	DNA endoreduplication

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0048856	anatomical structure development
biological_process	GO:0030154	cell differentiation
biological_process	GO:0016043	cellular component organization
biological_process	GO:0042023	DNA endoreduplication
biological_process	GO:0044763	single-organism cellular process
biological_process	GO:0044767	single-organism developmental process
biological_process	GO:0048731	system development
biological_process	GO:0009888	tissue development
cellular_component	GO:0009330	DNA topoisomerase complex (ATP-hydrolyzing)
molecular_function	GO:0003690	double-stranded DNA binding

Relationships

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


Feature Name	Unique Name	Type
CSPI02G16460.2	CSPI02G16460.2	mRNA
CSPI02G16460.1	CSPI02G16460.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (PI183967)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR34810	FAMILY NOT NAMED	coord: 6..107 score: 1.1

Synteny

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


Gene	Orthologue	Organism	Block
CSPI02G16460	Csa2G338790	Cucumber (Chinese Long) v2	cpicuB065
CSPI02G16460	MELO3C023191	Melon (DHL92) v3.5.1	cpimeB094
CSPI02G16460	MELO3C023191.2	Melon (DHL92) v3.6.1	cpimedB085
CSPI02G16460	CsaV3_2G019700	Cucumber (Chinese Long) v3	cpicucB082
CSPI02G16460	Cucsa.228150	Cucumber (Gy14) v1	cgycpiB339
CSPI02G16460	CsGy2G016070	Cucumber (Gy14) v2	cgybcpiB058

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CSPI02G16460	Cucurbita moschata (Rifu)	cmocpiB540
CSPI02G16460	Watermelon (Charleston Gray)	cpiwcgB126
CSPI02G16460	Cucurbita pepo (Zucchini)	cpecpiB273
CSPI02G16460	Cucurbita pepo (Zucchini)	cpecpiB711
CSPI02G16460	Watermelon (97103) v2	cpiwmbB119