Lsi03G003780 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi03G003780
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	Sister chromatid cohesion 1 protein, putative
Location	chr03 : 4427605 .. 4428567 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDS

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

AACACTTGCCCCAATTGAATTCCGCCTCTCAATTTATCAATTTTCCGTTATTTCCCCAAAACTTTTCAGAAAATTCCTTTCCAGACACATTTTCCCATTTCTGATTTTTACCTTGCAAGCTTCTTATTATTTTATAATTACCATAGTTTTGTTCGGGTTCGAGGCTTCCCCTGCACTCTTCTTCTTCTTCTTCCCTTCTTCTTCCCTTCTTCTTCTTCTTCCATTTTGCATGAAAGTTCTGCACTCTCTCTGCATTTGAATTTCAGAGCCGAAAGCTTCAATGCCCTCTGACTTGTTGGGGCGTAAAATAGAAGACATTGAGCTATGTTTCACTCACACTGCCTTCTTTCGAGGAAAGGCCCTTTAGGCGCCATTTGGGTCGCTGCTTACTGCTTCAAAAAGCTCAAGAAATCTCTGGTTATGGAAACTGATATCCCCTCCTCTGTTGGTTCGTCCTTCCCTTTCGTCTTCCTCTTAGTAATTTTATTCCCCTCTTCATTTATGCATTTCGGATTTGGGTATAGAGTGAATGCATCCCCATATTGAGTTGTTTACTGAAGTTATTACAGTGCGCCTATTTTTTGGGTCATGGAGTTGCTTCTTATTGACCAAATGATCGTATTTCCTAACATATTGTGAACATATCTTCTTTGCTATCACCAATTTGGGAGAAAGGCAGCAAAATCGTTTTTTACTCGCAGTGCATTTGTCAATTTGATTATTGTTGTTTGTTTATGAAATCCATTATTAGTTATCTTATAAGAGTCCGTCTAGAGAGGGAAATACCTATTGTATAGAGTTTCTGAAATTTAATTTGATATTTGGTTTGGATTTGTGCTTTTAGCAGTTTGTTTGTTTGCTTCACTGGGTTTCCTGGTTTCTAGAAAAACCTCAAATGTAAATACAAGACCTTTTGGACCTTTCTCACAAGTCAGAGTCTATGTTGTCTGGTTTTGGGAATAA

mRNA sequence

AACACTTGCCCCAATTGAATTCCGCCTCTCAATTTATCAATTTTCCGTTATTTCCCCAAAACTTTTCAGAAAATTCCTTTCCAGACACATTTTCCCATTTCTGATTTTTACCTTGCAAGCTTCTTATTATTTTATAATTACCATAGTTTTGTTCGGGTTCGAGGCTTCCCCTGCACTCTTCTTCTTCTTCTTCCCTTCTTCTTCCCTTCTTCTTCTTCTTCCATTTTGCATGAAAGTTCTGCACTCTCTCTGCATTTGAATTTCAGAGCCGAAAGCTTCAATGCCCTCTGACTTGTTGGGGCGTAAAATAGAAGACATTGAGCTATGTTTCACTCACACTGCCTTCTTTCGAGGAAAGGCCCTTTAGGCGCCATTTGGGTCGCTGCTTACTGCTTCAAAAAGCTCAAGAAATCTCTGGTTATGGAAACTGATATCCCCTCCTCTGTTGTTTGTTTGTTTGCTTCACTGGGTTTCCTGGTTTCTAGAAAAACCTCAAATGTAAATACAAGACCTTTTGGACCTTTCTCACAAGTCAGAGTCTATGTTGTCTGGTTTTGGGAATAA

Coding sequence (CDS)

ATGTTTCACTCACACTGCCTTCTTTCGAGGAAAGGCCCTTTAGGCGCCATTTGGGTCGCTGCTTACTGCTTCAAAAAGCTCAAGAAATCTCTGGTTATGGAAACTGATATCCCCTCCTCTGTTGTTTGTTTGTTTGCTTCACTGGGTTTCCTGGTTTCTAGAAAAACCTCAAATGTAAATACAAGACCTTTTGGACCTTTCTCACAAGTCAGAGTCTATGTTGTCTGGTTTTGGGAATAA

Protein sequence

MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSVVCLFASLGFLVSRKTSNVNTRPFGPFSQVRVYVVWFWE

Homology

[Close]

BLAST of Lsi03G003780 vs. Swiss-Prot
Match: SCC12_ARATH (Sister chromatid cohesion 1 protein 2 OS=Arabidopsis thaliana GN=SYN2 PE=2 SV=2)

HSP 1 Score: 71.6 bits (174), Expect = 4.3e-12
Identity = 34/41 (82.93%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SHCL+SRKGPLGAIWVAAY FKKLKKS V  T IPSSV
Sbjct: 1  MFYSHCLVSRKGPLGAIWVAAYFFKKLKKSQVKATHIPSSV 41

[Close]

BLAST of Lsi03G003780 vs. Swiss-Prot
Match: SCC13_ARATH (Sister chromatid cohesion 1 protein 3 OS=Arabidopsis thaliana GN=SYN3 PE=2 SV=2)

HSP 1 Score: 51.2 bits (121), Expect = 5.9e-06
Identity = 22/41 (53.66%), Postives = 30/41 (73.17%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SH LL+RKGPLG +W AA+  ++LKKS     +IP +V
Sbjct: 1  MFYSHTLLARKGPLGTVWCAAHVHQRLKKSQYTSINIPDTV 41

[Close]

BLAST of Lsi03G003780 vs. TrEMBL
Match: A0A0A0K7K5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G008030 PE=4 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 1.6e-13
Identity = 38/41 (92.68%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIW+AAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWLAAYCFKKLKKSLVMETDIPFSV 41

[Close]

BLAST of Lsi03G003780 vs. TrEMBL
Match: A0A067EWR3_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g003905mg PE=4 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 6.2e-10
Identity = 33/41 (80.49%), Postives = 37/41 (90.24%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+S  LLSRKGPLGAIWVAAYCFK+LKK+ V ET+IPSSV
Sbjct: 1  MFYSRSLLSRKGPLGAIWVAAYCFKRLKKAQVFETNIPSSV 41

[Close]

BLAST of Lsi03G003780 vs. TrEMBL
Match: A0A067LD59_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_10157 PE=4 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 6.2e-10
Identity = 31/41 (75.61%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SHC LSRKGPLGA+WVAAYC+KKLKK+ V +TDI  SV
Sbjct: 1  MFYSHCFLSRKGPLGAVWVAAYCYKKLKKAQVTQTDISYSV 41

[Close]

BLAST of Lsi03G003780 vs. TrEMBL
Match: V4UDK8_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10014314mg PE=4 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 6.2e-10
Identity = 33/41 (80.49%), Postives = 37/41 (90.24%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+S  LLSRKGPLGAIWVAAYCFK+LKK+ V ET+IPSSV
Sbjct: 1  MFYSRSLLSRKGPLGAIWVAAYCFKRLKKAQVFETNIPSSV 41

[Close]

BLAST of Lsi03G003780 vs. TrEMBL
Match: B9RBL8_RICCO (Sister chromatid cohesion 1 protein, putative OS=Ricinus communis GN=RCOM_1678520 PE=4 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 6.2e-10
Identity = 33/41 (80.49%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SH  LSRKGPLGAIWVAAYCFKKLKK+ V +TDI SSV
Sbjct: 1  MFYSHSFLSRKGPLGAIWVAAYCFKKLKKAQVTQTDIASSV 41

[Close]

BLAST of Lsi03G003780 vs. TAIR10
Match: AT5G40840.2 (AT5G40840.2 Rad21/Rec8-like family protein)

HSP 1 Score: 71.6 bits (174), Expect = 2.4e-13
Identity = 34/41 (82.93%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SHCL+SRKGPLGAIWVAAY FKKLKKS V  T IPSSV
Sbjct: 1  MFYSHCLVSRKGPLGAIWVAAYFFKKLKKSQVKATHIPSSV 41

[Close]

BLAST of Lsi03G003780 vs. TAIR10
Match: AT3G59550.1 (AT3G59550.1 Rad21/Rec8-like family protein)

HSP 1 Score: 51.2 bits (121), Expect = 3.4e-07
Identity = 22/41 (53.66%), Postives = 30/41 (73.17%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+SH LL+RKGPLG +W AA+  ++LKKS     +IP +V
Sbjct: 1  MFYSHTLLARKGPLGTVWCAAHVHQRLKKSQYTSINIPDTV 41

[Close]

BLAST of Lsi03G003780 vs. TAIR10
Match: AT5G16270.1 (AT5G16270.1 sister chromatid cohesion 1 protein 4)

HSP 1 Score: 50.1 bits (118), Expect = 7.5e-07
Identity = 22/41 (53.66%), Postives = 32/41 (78.05%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MF+S  +L++KGPLG IW+AA+  +KL+K+ V +TDI  SV
Sbjct: 1  MFYSQFILAKKGPLGTIWIAAHLERKLRKNQVADTDIGVSV 41

[Close]

BLAST of Lsi03G003780 vs. NCBI nr
Match: gi|659081504|ref|XP_008441366.1| (PREDICTED: sister chromatid cohesion 1 protein 2 isoform X2 [Cucumis melo])

HSP 1 Score: 84.3 bits (207), Expect = 1.0e-13
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIWVAAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWVAAYCFKKLKKSLVMETDIPFSV 41

[Close]

BLAST of Lsi03G003780 vs. NCBI nr
Match: gi|659081502|ref|XP_008441365.1| (PREDICTED: sister chromatid cohesion 1 protein 2 isoform X1 [Cucumis melo])

HSP 1 Score: 84.3 bits (207), Expect = 1.0e-13
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIWVAAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWVAAYCFKKLKKSLVMETDIPFSV 41

[Close]

BLAST of Lsi03G003780 vs. NCBI nr
Match: gi|778709290|ref|XP_011656379.1| (PREDICTED: sister chromatid cohesion 1 protein 2 isoform X3 [Cucumis sativus])

HSP 1 Score: 83.2 bits (204), Expect = 2.3e-13
Identity = 38/41 (92.68%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIW+AAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWLAAYCFKKLKKSLVMETDIPFSV 41

[Close]

BLAST of Lsi03G003780 vs. NCBI nr
Match: gi|778709286|ref|XP_011656378.1| (PREDICTED: sister chromatid cohesion 1 protein 2 isoform X2 [Cucumis sativus])

HSP 1 Score: 83.2 bits (204), Expect = 2.3e-13
Identity = 38/41 (92.68%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIW+AAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWLAAYCFKKLKKSLVMETDIPFSV 41

[Close]

BLAST of Lsi03G003780 vs. NCBI nr
Match: gi|778709283|ref|XP_011656377.1| (PREDICTED: sister chromatid cohesion 1 protein 2 isoform X1 [Cucumis sativus])

HSP 1 Score: 83.2 bits (204), Expect = 2.3e-13
Identity = 38/41 (92.68%), Postives = 39/41 (95.12%), Query Frame = 1


Query: 1  MFHSHCLLSRKGPLGAIWVAAYCFKKLKKSLVMETDIPSSV 42
          MFHSHCLL RKGPLGAIW+AAYCFKKLKKSLVMETDIP SV
Sbjct: 1  MFHSHCLLLRKGPLGAIWLAAYCFKKLKKSLVMETDIPFSV 41

The following BLAST results are available for this feature:

BLAST of Lsi03G003780 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SCC12_ARATH	4.3e-12	82.93	Sister chromatid cohesion 1 protein 2 OS=Arabidopsis thaliana GN=SYN2 PE=2 SV=2	[more]
SCC13_ARATH	5.9e-06	53.66	Sister chromatid cohesion 1 protein 3 OS=Arabidopsis thaliana GN=SYN3 PE=2 SV=2	[more]

BLAST of Lsi03G003780 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0K7K5_CUCSA	1.6e-13	92.68	Uncharacterized protein OS=Cucumis sativus GN=Csa_6G008030 PE=4 SV=1	[more]
A0A067EWR3_CITSI	6.2e-10	80.49	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g003905mg PE=4 SV=1	[more]
A0A067LD59_JATCU	6.2e-10	75.61	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_10157 PE=4 SV=1	[more]
V4UDK8_9ROSI	6.2e-10	80.49	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10014314mg PE=4 SV=1	[more]
B9RBL8_RICCO	6.2e-10	80.49	Sister chromatid cohesion 1 protein, putative OS=Ricinus communis GN=RCOM_167852...	[more]

BLAST of Lsi03G003780 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G40840.2	2.4e-13	82.93	Rad21/Rec8-like family protein	[more]
AT3G59550.1	3.4e-07	53.66	Rad21/Rec8-like family protein	[more]
AT5G16270.1	7.5e-07	53.66	sister chromatid cohesion 1 protein 4	[more]

BLAST of Lsi03G003780 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659081504\|ref\|XP_008441366.1\|	1.0e-13	95.12	PREDICTED: sister chromatid cohesion 1 protein 2 isoform X2 [Cucumis melo]	[more]
gi\|659081502\|ref\|XP_008441365.1\|	1.0e-13	95.12	PREDICTED: sister chromatid cohesion 1 protein 2 isoform X1 [Cucumis melo]	[more]
gi\|778709290\|ref\|XP_011656379.1\|	2.3e-13	92.68	PREDICTED: sister chromatid cohesion 1 protein 2 isoform X3 [Cucumis sativus]	[more]
gi\|778709286\|ref\|XP_011656378.1\|	2.3e-13	92.68	PREDICTED: sister chromatid cohesion 1 protein 2 isoform X2 [Cucumis sativus]	[more]
gi\|778709283\|ref\|XP_011656377.1\|	2.3e-13	92.68	PREDICTED: sister chromatid cohesion 1 protein 2 isoform X1 [Cucumis sativus]	[more]

Annotated Terms

The following terms have been associated with this gene:

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

Vocabulary: **INTERPRO**
Term	Definition
IPR006910	Rad21_Rec8_N

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0051301	cell division
biological_process	GO:0006302	double-strand break repair
biological_process	GO:0007067	mitotic nuclear division
biological_process	GO:0007062	sister chromatid cohesion
cellular_component	GO:0000785	chromatin
cellular_component	GO:0000798	nuclear cohesin complex
molecular_function	GO:0003682	chromatin binding
molecular_function	GO:0005515	protein binding

Relationships

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


Feature Name	Unique Name	Type
Lsi03G003780.1	Lsi03G003780.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006910	Rad21/Rec8-like protein, N-terminal	PFAM	PF04825	Rad21_Rec8_N	coord: 1..42 score: 7.0
None	No IPR available	PANTHER	PTHR12585	SCC1 / RAD21 FAMILY MEMBER	coord: 2..41 score: 5.5
None	No IPR available	PANTHER	PTHR12585:SF31	SISTER CHROMATID COHESION 1 PROTEIN 2	coord: 2..41 score: 5.5

Synteny

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


Gene	Orthologue	Organism	Block
Lsi03G003780	ClCG11G006940	Watermelon (Charleston Gray)	lsiwcgB226
Lsi03G003780	Cla97C11G213870	Watermelon (97103) v2	lsiwmbB222
Lsi03G003780	Bhi04G001967	Wax gourd	lsiwgoB322

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Lsi03G003780	Cucumber (Chinese Long) v3	cuclsiB473
Lsi03G003780	Cucumber (Gy14) v1	cgylsiB216
Lsi03G003780	Cucurbita maxima (Rimu)	cmalsiB276
Lsi03G003780	Cucurbita maxima (Rimu)	cmalsiB656
Lsi03G003780	Cucurbita maxima (Rimu)	cmalsiB663
Lsi03G003780	Cucurbita moschata (Rifu)	cmolsiB265
Lsi03G003780	Cucurbita moschata (Rifu)	cmolsiB645
Lsi03G003780	Cucurbita moschata (Rifu)	cmolsiB654
Lsi03G003780	Cucurbita pepo (Zucchini)	cpelsiB143
Lsi03G003780	Cucurbita pepo (Zucchini)	cpelsiB339
Lsi03G003780	Cucurbita pepo (Zucchini)	cpelsiB344
Lsi03G003780	Wild cucumber (PI 183967)	cpilsiB451
Lsi03G003780	Cucumber (Chinese Long) v2	culsiB444
Lsi03G003780	Melon (DHL92) v3.5.1	lsimeB259
Lsi03G003780	Watermelon (97103) v1	lsiwmB277
Lsi03G003780	Cucumber (Gy14) v2	cgyblsiB409
Lsi03G003780	Melon (DHL92) v3.6.1	lsimedB272
Lsi03G003780	Silver-seed gourd	carlsiB017
Lsi03G003780	Silver-seed gourd	carlsiB018
Lsi03G003780	Silver-seed gourd	carlsiB924