Csa1G030660 (gene) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Csa1G030660
Type	gene
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	RNA polymerase II subunit A C-terminal domain phosphatase SSU72; contains IPR006811 (RNA polymerase II subunit A)
Location	Chr1 : 3208133 .. 3208415 (+)

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.

ATGATGAAAACTGTACTGATTGTTAATTTGGAGGTAAAAGATAACCACGAGGAGGCAGCCATAGGAGCGCGACTTACTTTTGATCTTTGCCAGGAGGTCTGGCTCTCTAACTCTCTTGATTTTATTTTATTCATTATCCGTTTGTGTCGATGGAGTTTTATGGAATATCTTTTCATGATAGATTGAACGGACTGAATCATGGGAAGATTCTATAGATGACATCGTGATTAACTTCGAAAAACAGCTGAGAAGAAAACTGTTGTATAGCATTTCCTTTTACTGA

mRNA sequence

ATGATGAAAACTGTACTGATTGTTAATTTGGAGGTAAAAGATAACCACGAGGAGGCAGCCATAGGAGCGCGACTTACTTTTGATCTTTGCCAGGAGATTGAACGGACTGAATCATGGGAAGATTCTATAGATGACATCGTGATTAACTTCGAAAAACAGCTGAGAAGAAAACTGTTGTATAGCATTTCCTTTTACTGA

Coding sequence (CDS)

ATGATGAAAACTGTACTGATTGTTAATTTGGAGGTAAAAGATAACCACGAGGAGGCAGCCATAGGAGCGCGACTTACTTTTGATCTTTGCCAGGAGATTGAACGGACTGAATCATGGGAAGATTCTATAGATGACATCGTGATTAACTTCGAAAAACAGCTGAGAAGAAAACTGTTGTATAGCATTTCCTTTTACTGA

Protein sequence

MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISFY*

Homology

[Close]

BLAST of Csa1G030660 vs. Swiss-Prot
Match: SSU72_MOUSE (RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Mus musculus GN=Ssu72 PE=1 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 2.8e-09
Identity = 27/61 (44.26%), Postives = 42/61 (68.85%), Query Frame = 1


Query: 5   VLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISF 64
           V +VN++++DNHEEA +GA L  +LCQ I+ TE  E+ ID+++  FE++  R  L+++ F
Sbjct: 134 VHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSGRAFLHTVCF 193

Query: 65  Y 66
           Y
Sbjct: 194 Y 194

[Close]

BLAST of Csa1G030660 vs. Swiss-Prot
Match: SSU72_RAT (RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Rattus norvegicus GN=Ssu72 PE=2 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 2.8e-09
Identity = 27/61 (44.26%), Postives = 42/61 (68.85%), Query Frame = 1


Query: 5   VLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISF 64
           V +VN++++DNHEEA +GA L  +LCQ I+ TE  E+ ID+++  FE++  R  L+++ F
Sbjct: 134 VHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSGRAFLHTVCF 193

Query: 65  Y 66
           Y
Sbjct: 194 Y 194

[Close]

BLAST of Csa1G030660 vs. Swiss-Prot
Match: SSU72_HUMAN (RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Homo sapiens GN=SSU72 PE=1 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 2.8e-09
Identity = 27/61 (44.26%), Postives = 42/61 (68.85%), Query Frame = 1


Query: 5   VLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISF 64
           V +VN++++DNHEEA +GA L  +LCQ I+ TE  E+ ID+++  FE++  R  L+++ F
Sbjct: 134 VHVVNVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSGRTFLHTVCF 193

Query: 65  Y 66
           Y
Sbjct: 194 Y 194

[Close]

BLAST of Csa1G030660 vs. Swiss-Prot
Match: SSU72_BOVIN (RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Bos taurus GN=SSU72 PE=2 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 3.7e-09
Identity = 26/61 (42.62%), Postives = 42/61 (68.85%), Query Frame = 1


Query: 5   VLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISF 64
           V ++N++++DNHEEA +GA L  +LCQ I+ TE  E+ ID+++  FE++  R  L+++ F
Sbjct: 134 VHVINVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSGRTFLHTVCF 193

Query: 65  Y 66
           Y
Sbjct: 194 Y 194

[Close]

BLAST of Csa1G030660 vs. Swiss-Prot
Match: SSU72_CHICK (RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Gallus gallus GN=SSU72 PE=2 SV=1)

HSP 1 Score: 61.6 bits (148), Expect = 3.7e-09
Identity = 26/61 (42.62%), Postives = 42/61 (68.85%), Query Frame = 1


Query: 5   VLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYSISF 64
           V ++N++++DNHEEA +GA L  +LCQ I+ TE  E+ ID+++  FE++  R  L+++ F
Sbjct: 134 VHVINVDIQDNHEEATLGAFLICELCQCIQHTEDMENEIDELLQEFEEKSGRTFLHTVCF 193

Query: 65  Y 66
           Y
Sbjct: 194 Y 194

[Close]

BLAST of Csa1G030660 vs. TrEMBL
Match: A0A0A0LPW0_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G030660 PE=4 SV=1)

HSP 1 Score: 131.3 bits (329), Expect = 4.2e-28
Identity = 65/65 (100.00%), Postives = 65/65 (100.00%), Query Frame = 1


Query: 1  MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
          MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY
Sbjct: 1  MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60

Query: 61 SISFY 66
          SISFY
Sbjct: 61 SISFY 65

[Close]

BLAST of Csa1G030660 vs. TrEMBL
Match: D7T1F4_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_06s0009g01900 PE=4 SV=1)

HSP 1 Score: 114.8 bits (286), Expect = 4.1e-23
Identity = 54/65 (83.08%), Postives = 59/65 (90.77%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           +MKTVL++NLEVKDNHEEAAIGARL  DLCQEIE TESWEDS+DD+V  FEKQ RRKLLY
Sbjct: 129 LMKTVLVINLEVKDNHEEAAIGARLALDLCQEIEATESWEDSVDDVVSGFEKQHRRKLLY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

[Close]

BLAST of Csa1G030660 vs. TrEMBL
Match: A0A067DWF9_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g029458mg PE=4 SV=1)

HSP 1 Score: 111.7 bits (278), Expect = 3.4e-22
Identity = 53/64 (82.81%), Postives = 58/64 (90.62%), Query Frame = 1


Query: 2   MKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYS 61
           MKTVL++NLEVKDNHEEAAIG RLTFDLCQEIE  ESWE+SIDDI+  FEK+ RRKLLYS
Sbjct: 130 MKTVLVINLEVKDNHEEAAIGGRLTFDLCQEIEAAESWEESIDDIIAAFEKRHRRKLLYS 189

Query: 62  ISFY 66
           ISFY
Sbjct: 190 ISFY 193

[Close]

BLAST of Csa1G030660 vs. TrEMBL
Match: V4SC52_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10005966mg PE=4 SV=1)

HSP 1 Score: 111.7 bits (278), Expect = 3.4e-22
Identity = 53/64 (82.81%), Postives = 58/64 (90.62%), Query Frame = 1


Query: 2   MKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLYS 61
           MKTVL++NLEVKDNHEEAAIG RLTFDLCQEIE  ESWE+SIDDI+  FEK+ RRKLLYS
Sbjct: 130 MKTVLVINLEVKDNHEEAAIGGRLTFDLCQEIEAAESWEESIDDIIAAFEKRHRRKLLYS 189

Query: 62  ISFY 66
           ISFY
Sbjct: 190 ISFY 193

[Close]

BLAST of Csa1G030660 vs. TrEMBL
Match: I3S5R7_LOTJA (Uncharacterized protein OS=Lotus japonicus PE=2 SV=1)

HSP 1 Score: 111.3 bits (277), Expect = 4.5e-22
Identity = 52/65 (80.00%), Postives = 59/65 (90.77%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           ++KTVL++NLEVKDNHEEAA+GARLT DLCQEIE  ESWE+SIDDI+  FEKQ RRKLLY
Sbjct: 69  LLKTVLVINLEVKDNHEEAAVGARLTLDLCQEIEAAESWEESIDDIIGGFEKQHRRKLLY 128

Query: 61  SISFY 66
           SISFY
Sbjct: 129 SISFY 133

[Close]

BLAST of Csa1G030660 vs. TAIR10
Match: AT1G73820.1 (AT1G73820.1 Ssu72-like family protein)

HSP 1 Score: 103.6 bits (257), Expect = 4.8e-23
Identity = 48/65 (73.85%), Postives = 54/65 (83.08%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           + KT+L++NLEVKDNHEEAAIG RL  +LCQEIE  E+WED+IDDIV  FEKQ RRKL+Y
Sbjct: 129 LTKTILVMNLEVKDNHEEAAIGGRLALELCQEIEGNETWEDTIDDIVAGFEKQHRRKLVY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

[Close]

BLAST of Csa1G030660 vs. NCBI nr
Match: gi|449439211|ref|XP_004137380.1| (PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cucumis sativus])

HSP 1 Score: 131.3 bits (329), Expect = 6.0e-28
Identity = 65/65 (100.00%), Postives = 65/65 (100.00%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY
Sbjct: 129 MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

[Close]

BLAST of Csa1G030660 vs. NCBI nr
Match: gi|700208844|gb|KGN63940.1| (hypothetical protein Csa_1G030660 [Cucumis sativus])

HSP 1 Score: 131.3 bits (329), Expect = 6.0e-28
Identity = 65/65 (100.00%), Postives = 65/65 (100.00%), Query Frame = 1


Query: 1  MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
          MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY
Sbjct: 1  MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60

Query: 61 SISFY 66
          SISFY
Sbjct: 61 SISFY 65

[Close]

BLAST of Csa1G030660 vs. NCBI nr
Match: gi|659066237|ref|XP_008446784.1| (PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cucumis melo])

HSP 1 Score: 127.9 bits (320), Expect = 6.7e-27
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           +MKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVI FEKQLRRKLLY
Sbjct: 129 LMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVITFEKQLRRKLLY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

[Close]

BLAST of Csa1G030660 vs. NCBI nr
Match: gi|225435973|ref|XP_002271255.1| (PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Vitis vinifera])

HSP 1 Score: 114.8 bits (286), Expect = 5.8e-23
Identity = 54/65 (83.08%), Postives = 59/65 (90.77%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           +MKTVL++NLEVKDNHEEAAIGARL  DLCQEIE TESWEDS+DD+V  FEKQ RRKLLY
Sbjct: 129 LMKTVLVINLEVKDNHEEAAIGARLALDLCQEIEATESWEDSVDDVVSGFEKQHRRKLLY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

[Close]

BLAST of Csa1G030660 vs. NCBI nr
Match: gi|502164958|ref|XP_004513347.1| (PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cicer arietinum])

HSP 1 Score: 114.8 bits (286), Expect = 5.8e-23
Identity = 54/65 (83.08%), Postives = 60/65 (92.31%), Query Frame = 1


Query: 1   MMKTVLIVNLEVKDNHEEAAIGARLTFDLCQEIERTESWEDSIDDIVINFEKQLRRKLLY 60
           ++KTVL+VNLEVKDNHEEAAIGARLT DLCQEIE  ESWE+SIDDI++ FEKQ RRKLLY
Sbjct: 129 LLKTVLVVNLEVKDNHEEAAIGARLTLDLCQEIEAVESWEESIDDIIVGFEKQHRRKLLY 188

Query: 61  SISFY 66
           SISFY
Sbjct: 189 SISFY 193

The following BLAST results are available for this feature:

BLAST of Csa1G030660 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SSU72_MOUSE	2.8e-09	44.26	RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Mus musculus ...	[more]
SSU72_RAT	2.8e-09	44.26	RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Rattus norveg...	[more]
SSU72_HUMAN	2.8e-09	44.26	RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Homo sapiens ...	[more]
SSU72_BOVIN	3.7e-09	42.62	RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Bos taurus GN...	[more]
SSU72_CHICK	3.7e-09	42.62	RNA polymerase II subunit A C-terminal domain phosphatase SSU72 OS=Gallus gallus...	[more]

BLAST of Csa1G030660 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LPW0_CUCSA	4.2e-28	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_1G030660 PE=4 SV=1	[more]
D7T1F4_VITVI	4.1e-23	83.08	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_06s0009g01900 PE=4 SV=...	[more]
A0A067DWF9_CITSI	3.4e-22	82.81	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g029458mg PE=4 SV=1	[more]
V4SC52_9ROSI	3.4e-22	82.81	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10005966mg PE=4 SV=1	[more]
I3S5R7_LOTJA	4.5e-22	80.00	Uncharacterized protein OS=Lotus japonicus PE=2 SV=1	[more]

BLAST of Csa1G030660 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G73820.1	4.8e-23	73.85	Ssu72-like family protein	[more]

BLAST of Csa1G030660 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449439211\|ref\|XP_004137380.1\|	6.0e-28	100.00	PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cucu...	[more]
gi\|700208844\|gb\|KGN63940.1\|	6.0e-28	100.00	hypothetical protein Csa_1G030660 [Cucumis sativus]	[more]
gi\|659066237\|ref\|XP_008446784.1\|	6.7e-27	96.92	PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cucu...	[more]
gi\|225435973\|ref\|XP_002271255.1\|	5.8e-23	83.08	PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Viti...	[more]
gi\|502164958\|ref\|XP_004513347.1\|	5.8e-23	83.08	PREDICTED: RNA polymerase II subunit A C-terminal domain phosphatase SSU72 [Cice...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR006811	RNA_pol_II_suA

Vocabulary: **Molecular Function**
Term	Definition
GO:0004721	phosphoprotein phosphatase activity

Vocabulary: **Cellular Component**
Term	Definition
GO:0005634	nucleus

Vocabulary: **Biological Process**
Term	Definition
GO:0006397	mRNA processing

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006397	mRNA processing
biological_process	GO:0006470	protein dephosphorylation
cellular_component	GO:0009507	chloroplast
cellular_component	GO:0005634	nucleus
molecular_function	GO:0004721	phosphoprotein phosphatase activity

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
CU091925	cucumber EST collection version 3.0	transcribed_cluster
CU142942	cucumber EST collection version 3.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
Csa1G030660.1	Csa1G030660.1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
CU142942	CU142942	transcribed_cluster
CU091925	CU091925	transcribed_cluster

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006811	RNA polymerase II subunit A	PANTHER	PTHR20383	FAMILY NOT NAMED	coord: 2..65 score: 1.8
IPR006811	RNA polymerase II subunit A	PFAM	PF04722	Ssu72	coord: 2..65 score: 2.0

Synteny

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


Gene	Orthologue	Organism	Block
Csa1G030660	CSPI01G04980	Wild cucumber (PI 183967)	cpicuB000

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Csa1G030660	Melon (DHL92) v3.5.1	cumeB021
Csa1G030660	Watermelon (Charleston Gray)	cuwcgB057
Csa1G030660	Watermelon (Charleston Gray)	cuwcgB055
Csa1G030660	Watermelon (97103) v1	cuwmB060
Csa1G030660	Watermelon (97103) v1	cuwmB062
Csa1G030660	Cucurbita pepo (Zucchini)	cpecuB531
Csa1G030660	Cucurbita pepo (Zucchini)	cpecuB533
Csa1G030660	Bottle gourd (USVL1VR-Ls)	culsiB022
Csa1G030660	Bottle gourd (USVL1VR-Ls)	culsiB036
Csa1G030660	Cucumber (Gy14) v2	cgybcuB001
Csa1G030660	Melon (DHL92) v3.6.1	cumedB017
Csa1G030660	Silver-seed gourd	carcuB0546
Csa1G030660	Silver-seed gourd	carcuB0549
Csa1G030660	Watermelon (97103) v2	cuwmbB052
Csa1G030660	Watermelon (97103) v2	cuwmbB054
Csa1G030660	Wax gourd	cuwgoB034
Csa1G030660	Wax gourd	cuwgoB057
Csa1G030660	Cucurbita moschata (Rifu)	cmocuB198
Csa1G030660	Cucumber (Gy14) v1	cgycuB137
Csa1G030660	Cucurbita maxima (Rimu)	cmacuB214
Csa1G030660	Cucurbita maxima (Rimu)	cmacuB428
Csa1G030660	Cucurbita maxima (Rimu)	cmacuB432
Csa1G030660	Cucurbita moschata (Rifu)	cmocuB417
Csa1G030660	Cucurbita moschata (Rifu)	cmocuB422