Csa6G124110.1 (mRNA) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Csa6G124110.1
Type	mRNA
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	Serine palmitoyltransferase long chain base subunit; contains IPR015424 (Pyridoxal phosphate-dependent transferase)
Location	Chr6 : 8553601 .. 8553863 (+)
Sequence length	207

Genome Viewer

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.

ATGACGAAACCCTTGCACACCCAAACCCTAGATCTGCTTGCCGTCACTCACCGTCGTTCAAAGCCGCCTCTCCTCGCGGTCATGTTTTTATTTATGGTATGTTAAAATCCGCTTGTACAAAATCTTCTGATATTCTACTTTTATTTTTGTAGAATTCTGGTAAAATTGCACCATTGGATGAGATCATCAAAATGAAGGAGCAGTATCGATTTGGTGTTTTGTTGGATGAAAGCAACTCTTTTGGCGTACATGGCTGTACTTGA

mRNA sequence

ATGACGAAACCCTTGCACACCCAAACCCTAGATCTGCTTGCCGTCACTCACCGTCGTTCAAAGCCGCCTCTCCTCGCGGTCATGTTTTTATTTATGAATTCTGGTAAAATTGCACCATTGGATGAGATCATCAAAATGAAGGAGCAGTATCGATTTGGTGTTTTGTTGGATGAAAGCAACTCTTTTGGCGTACATGGCTGTACTTGA

Coding sequence (CDS)

ATGACGAAACCCTTGCACACCCAAACCCTAGATCTGCTTGCCGTCACTCACCGTCGTTCAAAGCCGCCTCTCCTCGCGGTCATGTTTTTATTTATGAATTCTGGTAAAATTGCACCATTGGATGAGATCATCAAAATGAAGGAGCAGTATCGATTTGGTGTTTTGTTGGATGAAAGCAACTCTTTTGGCGTACATGGCTGTACTTGA

Protein sequence

MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHGCT*

Homology

[Close]

BLAST of Csa6G124110.1 vs. Swiss-Prot
Match: LCB1_ARATH (Long chain base biosynthesis protein 1 OS=Arabidopsis thaliana GN=LCB1 PE=1 SV=1)

HSP 1 Score: 63.5 bits (153), Expect = 1.0e-09
Identity = 32/60 (53.33%), Postives = 42/60 (70.00%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 67
           TL+ +   ++RSK     +    ++ NSG+IAPLDEI+K+KE+YRF V+LDESNSFGV G
Sbjct: 231 TLEKIMTKYKRSKNLRRYIVAEAVYQNSGQIAPLDEIVKLKEKYRFRVILDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. Swiss-Prot
Match: LCB1B_ORYSJ (Long chain base biosynthesis protein 1b OS=Oryza sativa subsp. japonica GN=Os02g0806900 PE=2 SV=1)

HSP 1 Score: 57.8 bits (138), Expect = 5.6e-08
Identity = 29/60 (48.33%), Postives = 43/60 (71.67%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 67
           TL+ L   ++R++     + V  ++ NSG+IAPLDEI+++KE+YRF V+L+ES+SFGV G
Sbjct: 233 TLEKLTHGNKRTEKIRRYIVVEAIYQNSGQIAPLDEIVRLKEKYRFRVILEESHSFGVLG 292

[Close]

BLAST of Csa6G124110.1 vs. Swiss-Prot
Match: LCB1A_ORYSJ (Long chain base biosynthesis protein 1a OS=Oryza sativa subsp. japonica GN=Os03g0252800 PE=2 SV=1)

HSP 1 Score: 57.8 bits (138), Expect = 5.6e-08
Identity = 29/60 (48.33%), Postives = 43/60 (71.67%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 67
           TL+ L   ++R++     + V  ++ NSG+IAPLDEI+++KE+YRF V+L+ES+SFGV G
Sbjct: 233 TLEKLTRGNKRAEKIRRYIVVESIYQNSGQIAPLDEIVRLKEKYRFRVILEESHSFGVLG 292

[Close]

BLAST of Csa6G124110.1 vs. Swiss-Prot
Match: LCB1C_ORYSJ (Long chain base biosynthesis protein 1c OS=Oryza sativa subsp. japonica GN=Os10g0189600 PE=2 SV=2)

HSP 1 Score: 57.4 bits (137), Expect = 7.2e-08
Identity = 25/42 (59.52%), Postives = 34/42 (80.95%), Query Frame = 1


Query: 25  LAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 67
           + V  ++ NSG+IAPLDEI+++KE+YRF V+L+ES+SFGV G
Sbjct: 252 IVVEAIYQNSGQIAPLDEIVRLKEKYRFRVILEESHSFGVLG 293

[Close]

BLAST of Csa6G124110.1 vs. Swiss-Prot
Match: SPTC1_DICDI (Serine palmitoyltransferase 1 OS=Dictyostelium discoideum GN=sptA PE=3 SV=1)

HSP 1 Score: 51.2 bits (121), Expect = 5.2e-06
Identity = 23/39 (58.97%), Postives = 29/39 (74.36%), Query Frame = 1


Query: 30  LFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHGCT 69
           L+ NSG IAPL +I+K KEQY+F +++DES+S GV G T
Sbjct: 245 LYYNSGTIAPLPQILKFKEQYKFRLIMDESHSVGVLGST 283

[Close]

BLAST of Csa6G124110.1 vs. TrEMBL
Match: A0A0A0KG23_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_6G124110 PE=4 SV=1)

HSP 1 Score: 140.2 bits (352), Expect = 9.5e-31
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 1


Query: 1  MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN 60
          MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN
Sbjct: 1  MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN 60

Query: 61 SFGVHGCT 69
          SFGVHGCT
Sbjct: 61 SFGVHGCT 68

[Close]

BLAST of Csa6G124110.1 vs. TrEMBL
Match: A0A0A0LKR2_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G356100 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 4.1e-10
Identity = 38/62 (61.29%), Postives = 45/62 (72.58%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+     + R+K     + V  ++ NSGKIAPLDEIIK+KEQYRF VLLDESNSFGV G
Sbjct: 231 TLEKTTAGNERAKKLRRYIVVEAVYQNSGKIAPLDEIIKLKEQYRFRVLLDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. TrEMBL
Match: A0A0J8BH19_BETVU (Uncharacterized protein OS=Beta vulgaris subsp. vulgaris GN=BVRB_1g016420 PE=4 SV=1)

HSP 1 Score: 67.0 bits (162), Expect = 1.0e-08
Identity = 32/62 (51.61%), Postives = 47/62 (75.81%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+ + + ++R K     + +  ++ NSG+IAPLDEIIK+KE+YRF +L+DESNSFGV G
Sbjct: 231 TLEKITIENKRPKQIRRYIVIEGVYQNSGQIAPLDEIIKLKEKYRFRLLMDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. TrEMBL
Match: D7TB41_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_07s0130g00350 PE=4 SV=1)

HSP 1 Score: 66.2 bits (160), Expect = 1.7e-08
Identity = 34/62 (54.84%), Postives = 47/62 (75.81%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+ + + ++R+K     + V  ++ NSG+IAPLDEII++KE+YRF VLLDESNSFGV G
Sbjct: 231 TLEKITLENKRAKKLRRYIVVEAVYQNSGQIAPLDEIIRLKEKYRFRVLLDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. TrEMBL
Match: A0A0D2Q2Z2_GOSRA (Uncharacterized protein (Fragment) OS=Gossypium raimondii GN=B456_002G090700 PE=4 SV=1)

HSP 1 Score: 65.9 bits (159), Expect = 2.3e-08
Identity = 35/63 (55.56%), Postives = 47/63 (74.60%), Query Frame = 1


Query: 8   QTLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVH 67
           +TL+ + V ++R K     + V F++ NSG+IAPLD+IIK KE+YRF VLLDE+NSFGV 
Sbjct: 109 RTLEKITVQNKRVKKLRRYVVVEFVYQNSGQIAPLDKIIKSKEKYRFRVLLDETNSFGVL 168

Query: 68  GCT 69
           G T
Sbjct: 169 GRT 171

[Close]

BLAST of Csa6G124110.1 vs. TAIR10
Match: AT4G36480.1 (AT4G36480.1 long-chain base1)

HSP 1 Score: 63.5 bits (153), Expect = 5.7e-11
Identity = 32/60 (53.33%), Postives = 42/60 (70.00%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 67
           TL+ +   ++RSK     +    ++ NSG+IAPLDEI+K+KE+YRF V+LDESNSFGV G
Sbjct: 231 TLEKIMTKYKRSKNLRRYIVAEAVYQNSGQIAPLDEIVKLKEKYRFRVILDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. NCBI nr
Match: gi|700191492|gb|KGN46696.1| (hypothetical protein Csa_6G124110 [Cucumis sativus])

HSP 1 Score: 140.2 bits (352), Expect = 1.4e-30
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 1


Query: 1  MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN 60
          MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN
Sbjct: 1  MTKPLHTQTLDLLAVTHRRSKPPLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESN 60

Query: 61 SFGVHGCT 69
          SFGVHGCT
Sbjct: 61 SFGVHGCT 68

[Close]

BLAST of Csa6G124110.1 vs. NCBI nr
Match: gi|449450243|ref|XP_004142873.1| (PREDICTED: long chain base biosynthesis protein 1 [Cucumis sativus])

HSP 1 Score: 71.6 bits (174), Expect = 5.9e-10
Identity = 38/62 (61.29%), Postives = 45/62 (72.58%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+     + R+K     + V  ++ NSGKIAPLDEIIK+KEQYRF VLLDESNSFGV G
Sbjct: 231 TLEKTTAGNERAKKLRRYIVVEAVYQNSGKIAPLDEIIKLKEQYRFRVLLDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. NCBI nr
Match: gi|659087711|ref|XP_008444597.1| (PREDICTED: long chain base biosynthesis protein 1 isoform X1 [Cucumis melo])

HSP 1 Score: 71.6 bits (174), Expect = 5.9e-10
Identity = 38/62 (61.29%), Postives = 45/62 (72.58%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+     + R+K     + V  ++ NSGKIAPLDEIIK+KEQYRF VLLDESNSFGV G
Sbjct: 231 TLEKTTAGNERAKKLRRYIVVEAVYQNSGKIAPLDEIIKLKEQYRFRVLLDESNSFGVLG 290

[Close]

BLAST of Csa6G124110.1 vs. NCBI nr
Match: gi|659087713|ref|XP_008444598.1| (PREDICTED: long chain base biosynthesis protein 1 isoform X2 [Cucumis melo])

HSP 1 Score: 71.6 bits (174), Expect = 5.9e-10
Identity = 38/62 (61.29%), Postives = 45/62 (72.58%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+     + R+K     + V  ++ NSGKIAPLDEIIK+KEQYRF VLLDESNSFGV G
Sbjct: 143 TLEKTTAGNERAKKLRRYIVVEAVYQNSGKIAPLDEIIKLKEQYRFRVLLDESNSFGVLG 202

[Close]

BLAST of Csa6G124110.1 vs. NCBI nr
Match: gi|727547502|ref|XP_010446789.1| (PREDICTED: long chain base biosynthesis protein 1-like [Camelina sativa])

HSP 1 Score: 67.0 bits (162), Expect = 1.5e-08
Identity = 33/62 (53.23%), Postives = 46/62 (74.19%), Query Frame = 1


Query: 9   TLDLLAVTHRRSKP--PLLAVMFLFMNSGKIAPLDEIIKMKEQYRFGVLLDESNSFGVHG 68
           TL+ +   ++RSK     +    ++ NSG+IAPLDEI+K+KE+YRF V+LDESNSFGV G
Sbjct: 231 TLEKIMTKYKRSKNLRRYIVAEGVYQNSGQIAPLDEIVKLKEKYRFRVILDESNSFGVLG 290

The following BLAST results are available for this feature:

BLAST of Csa6G124110.1 vs. Swiss-Prot


Match Name	E-value	Identity	Description
LCB1_ARATH	1.0e-09	53.33	Long chain base biosynthesis protein 1 OS=Arabidopsis thaliana GN=LCB1 PE=1 SV=1	[more]
LCB1B_ORYSJ	5.6e-08	48.33	Long chain base biosynthesis protein 1b OS=Oryza sativa subsp. japonica GN=Os02g...	[more]
LCB1A_ORYSJ	5.6e-08	48.33	Long chain base biosynthesis protein 1a OS=Oryza sativa subsp. japonica GN=Os03g...	[more]
LCB1C_ORYSJ	7.2e-08	59.52	Long chain base biosynthesis protein 1c OS=Oryza sativa subsp. japonica GN=Os10g...	[more]
SPTC1_DICDI	5.2e-06	58.97	Serine palmitoyltransferase 1 OS=Dictyostelium discoideum GN=sptA PE=3 SV=1	[more]

BLAST of Csa6G124110.1 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KG23_CUCSA	9.5e-31	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_6G124110 PE=4 SV=1	[more]
A0A0A0LKR2_CUCSA	4.1e-10	61.29	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G356100 PE=4 SV=1	[more]
A0A0J8BH19_BETVU	1.0e-08	51.61	Uncharacterized protein OS=Beta vulgaris subsp. vulgaris GN=BVRB_1g016420 PE=4 S...	[more]
D7TB41_VITVI	1.7e-08	54.84	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_07s0130g00350 PE=4 SV=...	[more]
A0A0D2Q2Z2_GOSRA	2.3e-08	55.56	Uncharacterized protein (Fragment) OS=Gossypium raimondii GN=B456_002G090700 PE=...	[more]

BLAST of Csa6G124110.1 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G36480.1	5.7e-11	53.33	long-chain base1	[more]

BLAST of Csa6G124110.1 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|700191492\|gb\|KGN46696.1\|	1.4e-30	100.00	hypothetical protein Csa_6G124110 [Cucumis sativus]	[more]
gi\|449450243\|ref\|XP_004142873.1\|	5.9e-10	61.29	PREDICTED: long chain base biosynthesis protein 1 [Cucumis sativus]	[more]
gi\|659087711\|ref\|XP_008444597.1\|	5.9e-10	61.29	PREDICTED: long chain base biosynthesis protein 1 isoform X1 [Cucumis melo]	[more]
gi\|659087713\|ref\|XP_008444598.1\|	5.9e-10	61.29	PREDICTED: long chain base biosynthesis protein 1 isoform X2 [Cucumis melo]	[more]
gi\|727547502\|ref\|XP_010446789.1\|	1.5e-08	53.23	PREDICTED: long chain base biosynthesis protein 1-like [Camelina sativa]	[more]

Annotated Terms

The following terms have been associated with this mRNA:

Vocabulary: **INTERPRO**
Term	Definition
IPR015421	PyrdxlP-dep_Trfase_major
IPR015424	PyrdxlP-dep_Trfase

Vocabulary: **Molecular Function**
Term	Definition
GO:0003824	catalytic activity

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0044763	single-organism cellular process
biological_process	GO:0009058	biosynthetic process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003824	catalytic activity

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Csa6G124110	Csa6G124110	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Csa6G124110.1	Csa6G124110.1-protein	polypeptide

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


Feature Name	Unique Name	Type
Csa6G124110.1.cds1	Csa6G124110.1.cds1	CDS
Csa6G124110.1.cds2	Csa6G124110.1.cds2	CDS

InterPro

Analysis Name: InterPro Annotations of cucumber (Chinese Long)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR015421	Pyridoxal phosphate-dependent transferase, major region, subdomain 1	GENE3D	G3DSA:3.40.640.10		coord: 19..66 score: 1.
IPR015424	Pyridoxal phosphate-dependent transferase	unknown	SSF53383	PLP-dependent transferases	coord: 18..67 score: 9.2
None	No IPR available	PANTHER	PTHR13693	CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE	coord: 30..64 score: 6.4
None	No IPR available	PANTHER	PTHR13693:SF2	SERINE PALMITOYLTRANSFERASE 1	coord: 30..64 score: 6.4