CsGy3G027610 (gene) Cucumber (Gy14) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsGy3G027610
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v2)
Description	sm-like protein LSM7
Location	Chr3 : 28688386 .. 28689245 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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

CCTGATGATCCATTGAAGACAACAGATCAAACCAGGCCTCTTGGCCTAATTGTATGATTCTTACTATCTACATATTTTCATCATCGTTTAAAATAAAGCAACTATGATCAAAGCTTTGGATACCATGAACTATCAATTTTTCTAAATAGTATTGTTGTCTAAGCATGCAGCTTTGGACTTCATTTTGACAATTGCAATTATCTATGCGCTAAACAGATCAAATGGTTTTAGGTAGCTTGAAAATTTCAGAGCTTTTATTTATTGTTAAAGAAAAAAGTAGCTATCATGAGATTTTCCGACTGAAGACTTCCTCTAAGGACTGGATAAAGGCCTGTGTGTTCTGACCGAGCCTGTTTCTGTCATTTGAATAAATTGTATATACTTTTGCACTGTGCAAGTGCAATCGATTTTCTCTGCTGTCCATTGCACCATGTTAAACTGACTTGAAAATTTTTTATGCTACTGCTCATTCATTTGAAACTTCTTGCGTGCTTCATACATTTTCTTACCGTCTTTTTTCTCTTTTTATTGCTGTAATTTAGGGGTTAGGCCATGGTTAACTATGTTTTGTGAAAGTTTGTTGAAAATTATAAATTATTCTACCACTCAGAAAAAGTGAAAGTTGGGCTCTTCTTGAGCGTTTTGTGCATGTGCAGAAGAAGTAAACAGGTGTTATTTAAGGCGTGCATTTTAGTTCATATAGATTCTTTTCTTGCGTATTATCTAGCAACCTCAGTATGATTAAAATTGGCATACTATTCATTTCACAGGTGTGCAGGGGGACTGCTGTAATGCTGGTGTCTCCAGTTGATGGAACAGACGAGATTGCTAACCCTTTCATCCAACCCGATGGTGCATAG

mRNA sequence

CCTGATGATCCATTGAAGACAACAGATCAAACCAGGCCTCTTGGCCTAATTGTGTGCAGGGGGACTGCTGTAATGCTGGTGTCTCCAGTTGATGGAACAGACGAGATTGCTAACCCTTTCATCCAACCCGATGGTGCATAG

Coding sequence (CDS)

CCTGATGATCCATTGAAGACAACAGATCAAACCAGGCCTCTTGGCCTAATTGTGTGCAGGGGGACTGCTGTAATGCTGGTGTCTCCAGTTGATGGAACAGACGAGATTGCTAACCCTTTCATCCAACCCGATGGTGCATAG

Protein sequence

PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA

Homology

[Close]

BLAST of CsGy3G027610 vs. NCBI nr
Match: XP_004149601.1 (PREDICTED: sm-like protein LSM7 [Cucumis sativus] >XP_004149602.1 PREDICTED: sm-like protein LSM7 [Cucumis sativus] >XP_011651787.1 PREDICTED: sm-like protein LSM7 [Cucumis sativus] >KGN58602.1 hypothetical protein Csa_3G697950 [Cucumis sativus])

HSP 1 Score: 99.0 bits (245), Expect = 4.5e-18
Identity = 46/46 (100.00%), Postives = 46/46 (100.00%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. NCBI nr
Match: ERN11727.1 (hypothetical protein AMTR_s00022p00235920 [Amborella trichopoda])

HSP 1 Score: 95.9 bits (237), Expect = 3.8e-17
Identity = 43/46 (93.48%), Postives = 45/46 (97.83%), Query Frame = 0


Query: 1   PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
           PDDPLKTTDQTRPLGLIVCRGTAVMLVSP DGTDEI+NPF+QPDGA
Sbjct: 102 PDDPLKTTDQTRPLGLIVCRGTAVMLVSPTDGTDEISNPFVQPDGA 147

[Close]

BLAST of CsGy3G027610 vs. NCBI nr
Match: XP_011625467.1 (sm-like protein LSM7 [Amborella trichopoda] >XP_011625468.1 sm-like protein LSM7 [Amborella trichopoda] >XP_020526240.1 sm-like protein LSM7 [Amborella trichopoda])

HSP 1 Score: 95.9 bits (237), Expect = 3.8e-17
Identity = 43/46 (93.48%), Postives = 45/46 (97.83%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTRPLGLIVCRGTAVMLVSP DGTDEI+NPF+QPDGA
Sbjct: 54 PDDPLKTTDQTRPLGLIVCRGTAVMLVSPTDGTDEISNPFVQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. NCBI nr
Match: XP_022152570.1 (sm-like protein LSM7 [Momordica charantia] >XP_022152571.1 sm-like protein LSM7 [Momordica charantia])

HSP 1 Score: 95.5 bits (236), Expect = 5.0e-17
Identity = 45/46 (97.83%), Postives = 45/46 (97.83%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTR LGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRRLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. NCBI nr
Match: XP_004516147.1 (PREDICTED: sm-like protein LSM7 [Cicer arietinum])

HSP 1 Score: 94.4 bits (233), Expect = 1.1e-16
Identity = 44/46 (95.65%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTR LGLIVCRGTAVMLVSP DGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRSLGLIVCRGTAVMLVSPTDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. TAIR10
Match: AT2G03870.2 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 78.6 bits (192), Expect = 1.1e-15
Identity = 36/40 (90.00%), Postives = 38/40 (95.00%), Query Frame = 0


Query: 2  DDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFI 42
          DDPLKTTDQTR LGLIVCRGTAVMLVSP DGT+EIANPF+
Sbjct: 55 DDPLKTTDQTRRLGLIVCRGTAVMLVSPTDGTEEIANPFV 94

[Close]

BLAST of CsGy3G027610 vs. Swiss-Prot
Match: sp|Q9SI54|LSM7_ARATH (Sm-like protein LSM7 OS=Arabidopsis thaliana OX=3702 GN=LSM7 PE=1 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 2.1e-14
Identity = 36/40 (90.00%), Postives = 38/40 (95.00%), Query Frame = 0


Query: 2  DDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFI 42
          DDPLKTTDQTR LGLIVCRGTAVMLVSP DGT+EIANPF+
Sbjct: 55 DDPLKTTDQTRRLGLIVCRGTAVMLVSPTDGTEEIANPFV 94

[Close]

BLAST of CsGy3G027610 vs. Swiss-Prot
Match: sp|Q9UK45|LSM7_HUMAN (U6 snRNA-associated Sm-like protein LSm7 OS=Homo sapiens OX=9606 GN=LSM7 PE=1 SV=1)

HSP 1 Score: 61.2 bits (147), Expect = 3.4e-09
Identity = 27/46 (58.70%), Postives = 33/46 (71.74%), Query Frame = 0


Query: 1   PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
           PDD  K T+ TR LGL+VCRGT+V+L+ P DG + I NPFIQ   A
Sbjct: 58  PDDQYKLTEDTRQLGLVVCRGTSVVLICPQDGMEAIPNPFIQQQDA 103

[Close]

BLAST of CsGy3G027610 vs. Swiss-Prot
Match: sp|Q9CQQ8|LSM7_MOUSE (U6 snRNA-associated Sm-like protein LSm7 OS=Mus musculus OX=10090 GN=Lsm7 PE=1 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 5.8e-09
Identity = 25/42 (59.52%), Postives = 32/42 (76.19%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQ 43
          PDD  K T+ TR LGL+VCRGT+V+L+ P DG + I NPF+Q
Sbjct: 58 PDDQYKLTEDTRQLGLVVCRGTSVVLICPQDGMEAIPNPFVQ 99

[Close]

BLAST of CsGy3G027610 vs. Swiss-Prot
Match: sp|Q54HF6|LSM7_DICDI (Probable U6 snRNA-associated Sm-like protein LSm7 OS=Dictyostelium discoideum OX=44689 GN=lsm7 PE=3 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 9.3e-07
Identity = 22/39 (56.41%), Postives = 31/39 (79.49%), Query Frame = 0


Query: 2  DDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPF 41
          +DPL TTD+ R LGL+VCRG++VM+V P +G + I NP+
Sbjct: 59 EDPLITTDEKRFLGLVVCRGSSVMMVCPTEGCEPIDNPY 97

[Close]

BLAST of CsGy3G027610 vs. Swiss-Prot
Match: sp|O74499|LSM7_SCHPO (U6 snRNA-associated Sm-like protein LSm7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=lsm7 PE=1 SV=1)

HSP 1 Score: 50.1 bits (118), Expect = 7.8e-06
Identity = 20/39 (51.28%), Postives = 30/39 (76.92%), Query Frame = 0


Query: 6   KTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPD 45
           K T   R LGL+V RGT ++L++P+DG++EI NPF+Q +
Sbjct: 75  KLTGAIRKLGLVVVRGTTLVLIAPMDGSEEIPNPFVQAE 113

[Close]

BLAST of CsGy3G027610 vs. TrEMBL
Match: tr|A0A0A0LD28|A0A0A0LD28_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G697950 PE=4 SV=1)

HSP 1 Score: 99.0 bits (245), Expect = 3.0e-18
Identity = 46/46 (100.00%), Postives = 46/46 (100.00%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. TrEMBL
Match: tr|W1PP03|W1PP03_AMBTC (Uncharacterized protein OS=Amborella trichopoda OX=13333 GN=AMTR_s00022p00235920 PE=4 SV=1)

HSP 1 Score: 95.9 bits (237), Expect = 2.5e-17
Identity = 43/46 (93.48%), Postives = 45/46 (97.83%), Query Frame = 0


Query: 1   PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
           PDDPLKTTDQTRPLGLIVCRGTAVMLVSP DGTDEI+NPF+QPDGA
Sbjct: 102 PDDPLKTTDQTRPLGLIVCRGTAVMLVSPTDGTDEISNPFVQPDGA 147

[Close]

BLAST of CsGy3G027610 vs. TrEMBL
Match: tr|A0A2P5FFD8|A0A2P5FFD8_9ROSA (Sm-like protein Lsm7/snRNP-G OS=Trema orientalis OX=63057 GN=TorRG33x02_077880 PE=4 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 7.3e-17
Identity = 44/46 (95.65%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTR LGLIVCRGTAVMLVSP DGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRSLGLIVCRGTAVMLVSPTDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. TrEMBL
Match: tr|A0A1S3TGW6|A0A1S3TGW6_VIGRR (sm-like protein LSM7 OS=Vigna radiata var. radiata OX=3916 GN=LOC106755385 PE=4 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 7.3e-17
Identity = 44/46 (95.65%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTR LGLIVCRGTAVMLVSP DGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRQLGLIVCRGTAVMLVSPTDGTDEIANPFIQPDGA 99

[Close]

BLAST of CsGy3G027610 vs. TrEMBL
Match: tr|A0A0L9V5J1|A0A0L9V5J1_PHAAN (Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan08g105400 PE=4 SV=1)

HSP 1 Score: 94.4 bits (233), Expect = 7.3e-17
Identity = 44/46 (95.65%), Postives = 44/46 (95.65%), Query Frame = 0


Query: 1  PDDPLKTTDQTRPLGLIVCRGTAVMLVSPVDGTDEIANPFIQPDGA 47
          PDDPLKTTDQTR LGLIVCRGTAVMLVSP DGTDEIANPFIQPDGA
Sbjct: 54 PDDPLKTTDQTRQLGLIVCRGTAVMLVSPTDGTDEIANPFIQPDGA 99

The following BLAST results are available for this feature:

BLAST of CsGy3G027610 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004149601.1	4.5e-18	100.00	PREDICTED: sm-like protein LSM7 [Cucumis sativus] >XP_004149602.1 PREDICTED: sm-...	[more]
ERN11727.1	3.8e-17	93.48	hypothetical protein AMTR_s00022p00235920 [Amborella trichopoda]	[more]
XP_011625467.1	3.8e-17	93.48	sm-like protein LSM7 [Amborella trichopoda] >XP_011625468.1 sm-like protein LSM7...	[more]
XP_022152570.1	5.0e-17	97.83	sm-like protein LSM7 [Momordica charantia] >XP_022152571.1 sm-like protein LSM7 ...	[more]
XP_004516147.1	1.1e-16	95.65	PREDICTED: sm-like protein LSM7 [Cicer arietinum]	[more]

BLAST of CsGy3G027610 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G03870.2	1.1e-15	90.00	Small nuclear ribonucleoprotein family protein	[more]

BLAST of CsGy3G027610 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9SI54\|LSM7_ARATH	2.1e-14	90.00	Sm-like protein LSM7 OS=Arabidopsis thaliana OX=3702 GN=LSM7 PE=1 SV=1	[more]
sp\|Q9UK45\|LSM7_HUMAN	3.4e-09	58.70	U6 snRNA-associated Sm-like protein LSm7 OS=Homo sapiens OX=9606 GN=LSM7 PE=1 SV...	[more]
sp\|Q9CQQ8\|LSM7_MOUSE	5.8e-09	59.52	U6 snRNA-associated Sm-like protein LSm7 OS=Mus musculus OX=10090 GN=Lsm7 PE=1 S...	[more]
sp\|Q54HF6\|LSM7_DICDI	9.3e-07	56.41	Probable U6 snRNA-associated Sm-like protein LSm7 OS=Dictyostelium discoideum OX...	[more]
sp\|O74499\|LSM7_SCHPO	7.8e-06	51.28	U6 snRNA-associated Sm-like protein LSm7 OS=Schizosaccharomyces pombe (strain 97...	[more]

BLAST of CsGy3G027610 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0LD28\|A0A0A0LD28_CUCSA	3.0e-18	100.00	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G697950 PE=4 SV=1	[more]
tr\|W1PP03\|W1PP03_AMBTC	2.5e-17	93.48	Uncharacterized protein OS=Amborella trichopoda OX=13333 GN=AMTR_s00022p00235920...	[more]
tr\|A0A2P5FFD8\|A0A2P5FFD8_9ROSA	7.3e-17	95.65	Sm-like protein Lsm7/snRNP-G OS=Trema orientalis OX=63057 GN=TorRG33x02_077880 P...	[more]
tr\|A0A1S3TGW6\|A0A1S3TGW6_VIGRR	7.3e-17	95.65	sm-like protein LSM7 OS=Vigna radiata var. radiata OX=3916 GN=LOC106755385 PE=4 ...	[more]
tr\|A0A0L9V5J1\|A0A0L9V5J1_PHAAN	7.3e-17	95.65	Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan08g105400 PE...	[more]

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0000398	mRNA splicing, via spliceosome
biological_process	GO:0000956	nuclear-transcribed mRNA catabolic process
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
CsGy3G027610.1	CsGy3G027610.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber Gy14 genome (v2)
Date Performed: 2018-09-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	GENE3D	G3DSA:2.30.30.100		coord: 1..44 e-value: 7.5E-8 score: 33.9
None	No IPR available	PANTHER	PTHR10553:SF5	U6 SNRNA-ASSOCIATED SM-LIKE PROTEIN LSM7	coord: 2..44
None	No IPR available	PANTHER	PTHR10553	SMALL NUCLEAR RIBONUCLEOPROTEIN	coord: 2..44

Synteny

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


Gene	Orthologue	Organism	Block
CsGy3G027610	Cla017258	Watermelon (97103) v1	cgybwmB182
CsGy3G027610	Csa3G697950	Cucumber (Chinese Long) v2	cgybcuB111
CsGy3G027610	MELO3C023964	Melon (DHL92) v3.5.1	cgybmeB172
CsGy3G027610	ClCG10G012490	Watermelon (Charleston Gray)	cgybwcgB175
CsGy3G027610	CSPI03G29780	Wild cucumber (PI 183967)	cgybcpiB110
CsGy3G027610	CmaCh14G010150	Cucurbita maxima (Rimu)	cgybcmaB307
CsGy3G027610	CmaCh01G002200	Cucurbita maxima (Rimu)	cgybcmaB366
CsGy3G027610	CmoCh14G010310	Cucurbita moschata (Rifu)	cgybcmoB280
CsGy3G027610	CmoCh01G002310	Cucurbita moschata (Rifu)	cgybcmoB337
CsGy3G027610	Lsi03G012140	Bottle gourd (USVL1VR-Ls)	cgyblsiB168
CsGy3G027610	Cp4.1LG03g04380	Cucurbita pepo (Zucchini)	cgybcpeB396
CsGy3G027610	Cp4.1LG02g15460	Cucurbita pepo (Zucchini)	cgybcpeB378
CsGy3G027610	MELO3C023964.2	Melon (DHL92) v3.6.1	cgybmedB173
CsGy3G027610	CsaV3_3G032260	Cucumber (Chinese Long) v3	cgybcucB117
CsGy3G027610	Cla97C10G195280	Watermelon (97103) v2	cgybwmbB175
CsGy3G027610	Bhi11G001191	Wax gourd	cgybwgoB212
CsGy3G027610	Carg07317	Silver-seed gourd	carcgybB0756
CsGy3G027610	Carg11229	Silver-seed gourd	carcgybB0802

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsGy3G027610	Cucumber (Gy14) v2	cgybcgybB113
CsGy3G027610	Cucurbita maxima (Rimu)	cgybcmaB350
CsGy3G027610	Cucurbita maxima (Rimu)	cgybcmaB456
CsGy3G027610	Cucurbita moschata (Rifu)	cgybcmoB320
CsGy3G027610	Cucurbita moschata (Rifu)	cgybcmoB422
CsGy3G027610	Cucurbita pepo (Zucchini)	cgybcpeB308
CsGy3G027610	Cucurbita pepo (Zucchini)	cgybcpeB356
CsGy3G027610	Cucumber (Chinese Long) v2	cgybcuB150
CsGy3G027610	Bottle gourd (USVL1VR-Ls)	cgyblsiB156
CsGy3G027610	Melon (DHL92) v3.5.1	cgybmeB157
CsGy3G027610	Melon (DHL92) v3.6.1	cgybmedB157
CsGy3G027610	Watermelon (97103) v1	cgybwmB177
CsGy3G027610	Wild cucumber (PI 183967)	cgybcpiB154
CsGy3G027610	Silver-seed gourd	carcgybB0365
CsGy3G027610	Silver-seed gourd	carcgybB0460
CsGy3G027610	Cucumber (Chinese Long) v3	cgybcucB154
CsGy3G027610	Watermelon (97103) v2	cgybwmbB247
CsGy3G027610	Wax gourd	cgybwgoB338