Cucsa.119770 (gene) Cucumber (Gy14) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cucsa.119770
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v1)
Description	Niemann-Pick C1
Location	scaffold00998 : 1708638 .. 1708904 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

GTGTTGCTTGGTCTCTCAGGAGTTATACTTGTTGTGCTGTCTGTTCTAGGATCTATAGGATTCTTCAGTGCCATTGGAATAAAATCAACACTAATAATTATGGAGGTTATTCCATTTCTGGTGTTGGCGGTAAGTAATTTTGATGCTTTGAAGTTTCTACTTTTCTTTCAATTCTCTTGAGTTCAGTCTTTGTTACATTAAACGGCAGTAAAGTACGATAATGACTATATTTTTGTTGTTTAGTTTTCCCATTGTGTCGTAAGATAG

mRNA sequence

GTGTTGCTTGGTCTCTCAGGAGTTATACTTGTTGTGCTGTCTGTTCTAGGATCTATAGGATTCTTCAGTGCCATTGGAATAAAATCAACACTAATAATTATGGAGGTTATTCCATTTCTGGTGTTGGCGTTTTCCCATTGTGTCGTAAGATAG

Coding sequence (CDS)

GTGTTGCTTGGTCTCTCAGGAGTTATACTTGTTGTGCTGTCTGTTCTAGGATCTATAGGATTCTTCAGTGCCATTGGAATAAAATCAACACTAATAATTATGGAGGTTATTCCATTTCTGGTGTTGGCGTTTTCCCATTGTGTCGTAAGATAG

Protein sequence

VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLAFSHCVVR*

Homology

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BLAST of Cucsa.119770 vs. Swiss-Prot
Match: NPC1_YEAST (Niemann-Pick type C-related protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NCR1 PE=1 SV=1)

HSP 1 Score: 53.5 bits (127), Expect = 7.7e-07
Identity = 24/43 (55.81%), Postives = 36/43 (83.72%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           +LLG+SG+++V+ S++ + GF +  G+KSTLII EVIPFL+LA
Sbjct: 585 LLLGISGLLIVLASIVCAAGFLTLFGLKSTLIIAEVIPFLILA 627

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BLAST of Cucsa.119770 vs. Swiss-Prot
Match: NPC1_PIG (Niemann-Pick C1 protein OS=Sus scrofa GN=NPC1 PE=2 SV=1)

HSP 1 Score: 52.0 bits (123), Expect = 2.3e-06
Identity = 24/43 (55.81%), Postives = 35/43 (81.40%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           + LG++G+++V+ SV  S+G FS IG+  TLI++EVIPFLVLA
Sbjct: 654 ISLGIAGILIVLSSVACSLGIFSYIGVPLTLIVIEVIPFLVLA 696

[Close]

BLAST of Cucsa.119770 vs. Swiss-Prot
Match: NPCL1_RAT (Niemann-Pick C1-like protein 1 OS=Rattus norvegicus GN=Npc1l1 PE=1 SV=1)

HSP 1 Score: 52.0 bits (123), Expect = 2.3e-06
Identity = 23/41 (56.10%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 3   LGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           LGL GVI+V+ +VL ++GF+S +G+ S+L+I++V+PFLVLA
Sbjct: 668 LGLGGVIVVLGAVLAAMGFYSYLGVPSSLVIIQVVPFLVLA 708

[Close]

BLAST of Cucsa.119770 vs. Swiss-Prot
Match: NPC1_HUMAN (Niemann-Pick C1 protein OS=Homo sapiens GN=NPC1 PE=1 SV=2)

HSP 1 Score: 51.6 bits (122), Expect = 2.9e-06
Identity = 25/43 (58.14%), Postives = 35/43 (81.40%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           V LG++G+++V+ SV  S+G FS IG+  TLI++EVIPFLVLA
Sbjct: 654 VSLGIAGILIVLSSVACSLGVFSYIGLPLTLIVIEVIPFLVLA 696

[Close]

BLAST of Cucsa.119770 vs. Swiss-Prot
Match: NPCL1_HUMAN (Niemann-Pick C1-like protein 1 OS=Homo sapiens GN=NPC1L1 PE=1 SV=2)

HSP 1 Score: 51.2 bits (121), Expect = 3.8e-06
Identity = 22/41 (53.66%), Postives = 36/41 (87.80%), Query Frame = 1


Query: 3   LGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           LGL GV +V+ +V+ ++GFFS +GI+S+L+I++V+PFLVL+
Sbjct: 668 LGLGGVAVVLGAVMAAMGFFSYLGIRSSLVILQVVPFLVLS 708

[Close]

BLAST of Cucsa.119770 vs. TrEMBL
Match: V4S5N4_9ROSI (Uncharacterized protein (Fragment) OS=Citrus clementina GN=CICLE_v100301201mg PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 4.3e-12
Identity = 40/43 (93.02%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGVILV+LSVLGS+GFFSAIG+KSTLIIMEVIPFLVLA
Sbjct: 158 VLLGLSGVILVMLSVLGSVGFFSAIGVKSTLIIMEVIPFLVLA 200

[Close]

BLAST of Cucsa.119770 vs. TrEMBL
Match: M5W6J9_PRUPE (Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa000346mg PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 4.3e-12
Identity = 40/43 (93.02%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LVVLSVLGS+GFFSA+GIKSTLIIMEVIPFLVLA
Sbjct: 631 VLLGLSGVMLVVLSVLGSVGFFSAVGIKSTLIIMEVIPFLVLA 673

[Close]

BLAST of Cucsa.119770 vs. TrEMBL
Match: A0A067FY06_CITSI (Uncharacterized protein (Fragment) OS=Citrus sinensis GN=CISIN_1g0072031mg PE=4 SV=1)

HSP 1 Score: 77.8 bits (190), Expect = 4.3e-12
Identity = 40/43 (93.02%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1  VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
          VLLGLSGVILV+LSVLGS+GFFSAIG+KSTLIIMEVIPFLVLA
Sbjct: 24 VLLGLSGVILVMLSVLGSVGFFSAIGVKSTLIIMEVIPFLVLA 66

[Close]

BLAST of Cucsa.119770 vs. TrEMBL
Match: A0A067H2F8_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000762mg PE=4 SV=1)

HSP 1 Score: 77.4 bits (189), Expect = 5.6e-12
Identity = 39/43 (90.70%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LV+LSVLGS+GFFSAIG+KSTLIIMEVIPFLVLA
Sbjct: 664 VLLGLSGVVLVMLSVLGSVGFFSAIGVKSTLIIMEVIPFLVLA 706

[Close]

BLAST of Cucsa.119770 vs. TrEMBL
Match: A0A067GZS7_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000762mg PE=4 SV=1)

HSP 1 Score: 77.4 bits (189), Expect = 5.6e-12
Identity = 39/43 (90.70%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LV+LSVLGS+GFFSAIG+KSTLIIMEVIPFLVLA
Sbjct: 666 VLLGLSGVVLVMLSVLGSVGFFSAIGVKSTLIIMEVIPFLVLA 708

[Close]

BLAST of Cucsa.119770 vs. TAIR10
Match: AT1G42470.1 (AT1G42470.1 Patched family protein)

HSP 1 Score: 75.9 bits (185), Expect = 8.2e-15
Identity = 38/43 (88.37%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LV+LSVLGS+GFFSA+G+KSTLIIMEVIPFLVLA
Sbjct: 630 VLLGLSGVLLVMLSVLGSVGFFSAVGMKSTLIIMEVIPFLVLA 672

[Close]

BLAST of Cucsa.119770 vs. TAIR10
Match: AT4G38350.2 (AT4G38350.2 Patched family protein)

HSP 1 Score: 73.9 bits (180), Expect = 3.1e-14
Identity = 37/43 (86.05%), Postives = 42/43 (97.67%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LV+LSVLGS+G FSA+G+KSTLIIMEVIPFLVLA
Sbjct: 667 VLLGLSGVVLVLLSVLGSVGVFSALGVKSTLIIMEVIPFLVLA 709

[Close]

BLAST of Cucsa.119770 vs. NCBI nr
Match: gi|778712664|ref|XP_011656917.1| (PREDICTED: Niemann-Pick C1 protein isoform X1 [Cucumis sativus])

HSP 1 Score: 79.7 bits (195), Expect = 1.6e-12
Identity = 43/43 (100.00%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA
Sbjct: 671 VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 713

[Close]

BLAST of Cucsa.119770 vs. NCBI nr
Match: gi|778712679|ref|XP_011656920.1| (PREDICTED: Niemann-Pick C1 protein isoform X2 [Cucumis sativus])

HSP 1 Score: 79.7 bits (195), Expect = 1.6e-12
Identity = 43/43 (100.00%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA
Sbjct: 671 VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 713

[Close]

BLAST of Cucsa.119770 vs. NCBI nr
Match: gi|659094691|ref|XP_008448193.1| (PREDICTED: Niemann-Pick C1 protein-like isoform X1 [Cucumis melo])

HSP 1 Score: 79.3 bits (194), Expect = 2.1e-12
Identity = 42/43 (97.67%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGVILVVLSVLGS+GFFSAIGIKSTLIIMEVIPFLVLA
Sbjct: 670 VLLGLSGVILVVLSVLGSVGFFSAIGIKSTLIIMEVIPFLVLA 712

[Close]

BLAST of Cucsa.119770 vs. NCBI nr
Match: gi|659094693|ref|XP_008448194.1| (PREDICTED: Niemann-Pick C1 protein-like isoform X2 [Cucumis melo])

HSP 1 Score: 79.3 bits (194), Expect = 2.1e-12
Identity = 42/43 (97.67%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGVILVVLSVLGS+GFFSAIGIKSTLIIMEVIPFLVLA
Sbjct: 670 VLLGLSGVILVVLSVLGSVGFFSAIGIKSTLIIMEVIPFLVLA 712

[Close]

BLAST of Cucsa.119770 vs. NCBI nr
Match: gi|595796963|ref|XP_007201221.1| (hypothetical protein PRUPE_ppa000346mg [Prunus persica])

HSP 1 Score: 77.8 bits (190), Expect = 6.1e-12
Identity = 40/43 (93.02%), Postives = 43/43 (100.00%), Query Frame = 1


Query: 1   VLLGLSGVILVVLSVLGSIGFFSAIGIKSTLIIMEVIPFLVLA 44
           VLLGLSGV+LVVLSVLGS+GFFSA+GIKSTLIIMEVIPFLVLA
Sbjct: 631 VLLGLSGVMLVVLSVLGSVGFFSAVGIKSTLIIMEVIPFLVLA 673

The following BLAST results are available for this feature:

BLAST of Cucsa.119770 vs. Swiss-Prot


Match Name	E-value	Identity	Description
NPC1_YEAST	7.7e-07	55.81	Niemann-Pick type C-related protein 1 OS=Saccharomyces cerevisiae (strain ATCC 2...	[more]
NPC1_PIG	2.3e-06	55.81	Niemann-Pick C1 protein OS=Sus scrofa GN=NPC1 PE=2 SV=1	[more]
NPCL1_RAT	2.3e-06	56.10	Niemann-Pick C1-like protein 1 OS=Rattus norvegicus GN=Npc1l1 PE=1 SV=1	[more]
NPC1_HUMAN	2.9e-06	58.14	Niemann-Pick C1 protein OS=Homo sapiens GN=NPC1 PE=1 SV=2	[more]
NPCL1_HUMAN	3.8e-06	53.66	Niemann-Pick C1-like protein 1 OS=Homo sapiens GN=NPC1L1 PE=1 SV=2	[more]

BLAST of Cucsa.119770 vs. TrEMBL


Match Name	E-value	Identity	Description
V4S5N4_9ROSI	4.3e-12	93.02	Uncharacterized protein (Fragment) OS=Citrus clementina GN=CICLE_v100301201mg PE...	[more]
M5W6J9_PRUPE	4.3e-12	93.02	Uncharacterized protein OS=Prunus persica GN=PRUPE_ppa000346mg PE=4 SV=1	[more]
A0A067FY06_CITSI	4.3e-12	93.02	Uncharacterized protein (Fragment) OS=Citrus sinensis GN=CISIN_1g0072031mg PE=4 ...	[more]
A0A067H2F8_CITSI	5.6e-12	90.70	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000762mg PE=4 SV=1	[more]
A0A067GZS7_CITSI	5.6e-12	90.70	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000762mg PE=4 SV=1	[more]

BLAST of Cucsa.119770 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G42470.1	8.2e-15	88.37	Patched family protein	[more]
AT4G38350.2	3.1e-14	86.05	Patched family protein	[more]

BLAST of Cucsa.119770 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|778712664\|ref\|XP_011656917.1\|	1.6e-12	100.00	PREDICTED: Niemann-Pick C1 protein isoform X1 [Cucumis sativus]	[more]
gi\|778712679\|ref\|XP_011656920.1\|	1.6e-12	100.00	PREDICTED: Niemann-Pick C1 protein isoform X2 [Cucumis sativus]	[more]
gi\|659094691\|ref\|XP_008448193.1\|	2.1e-12	97.67	PREDICTED: Niemann-Pick C1 protein-like isoform X1 [Cucumis melo]	[more]
gi\|659094693\|ref\|XP_008448194.1\|	2.1e-12	97.67	PREDICTED: Niemann-Pick C1 protein-like isoform X2 [Cucumis melo]	[more]
gi\|595796963\|ref\|XP_007201221.1\|	6.1e-12	93.02	hypothetical protein PRUPE_ppa000346mg [Prunus persica]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR000731	SSD

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
Cucsa.119770.1	Cucsa.119770.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (Gy14)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000731	Sterol-sensing domain	PFAM	PF12349	Sterol-sensing	coord: 2..44 score: 1.
IPR000731	Sterol-sensing domain	PROFILE	PS50156	SSD	coord: 1..50 score: 12
None	No IPR available	PANTHER	PTHR10796	PATCHED-RELATED	coord: 1..43 score: 1.5
None	No IPR available	PANTHER	PTHR10796:SF117	PATCHED FAMILY PROTEIN	coord: 1..43 score: 1.5

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
Cucsa.119770	Cucumber (Chinese Long) v3	cgycucB159
Cucsa.119770	Watermelon (97103) v2	cgywmbB178
Cucsa.119770	Watermelon (97103) v2	cgywmbB179
Cucsa.119770	Wax gourd	cgywgoB211
Cucsa.119770	Cucurbita maxima (Rimu)	cgycmaB0305
Cucsa.119770	Cucurbita moschata (Rifu)	cgycmoB0303
Cucsa.119770	Wild cucumber (PI 183967)	cgycpiB156
Cucsa.119770	Cucumber (Chinese Long) v2	cgycuB155
Cucsa.119770	Melon (DHL92) v3.5.1	cgymeB179
Cucsa.119770	Watermelon (97103) v1	cgywmB180
Cucsa.119770	Cucurbita pepo (Zucchini)	cgycpeB0304
Cucsa.119770	Bottle gourd (USVL1VR-Ls)	cgylsiB177
Cucsa.119770	Melon (DHL92) v3.6.1	cgymedB177
Cucsa.119770	Silver-seed gourd	carcgyB0974