CsaV3_5G028510 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_5G028510
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	Mediator of RNA polymerase II transcription subunit
Location	chr5 : 23660411 .. 23660890 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

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

ATGGAATCCATTAATTCCCTCTCCTTCTCAACCCCCTCCCTCTTCTCCCCCGCCGCCCACCCCCACGTTCGCCGGAAACCACTTCCCGCCGTTACCGTAAGAGCGTCGCGAGAACAAGCAGCTGACAGCAACAATAACAATAAAAACAACAACAACAATTACTACGCAGGTGGGAAAGTAGTCGACGAGAGTATGATCGTGCTCCGGAAACGGATTCATGAGATCAAGATGGCGGAGCAGAGGCAAGAACCGCCGGCGGATTGGCTGGATTGGGAGAAACGGTGGTATTCCGATTACGATTCCCATATCTGTGAAGCTTTAGGGTATCTTCAATCTCATTTGATGAATACTCGGCCTAGTGTGGCTTTGGGAATGCTTCTGCTTATTATTATCAGCGTTCCGCTCTCCTCTGCTCTTCTTCTTCACCGATTCCTCCACATCGCCGTCGCTCTTCTCGCCGGTTTCTCTCCAGCGTCTTGA

mRNA sequence

ATGGAATCCATTAATTCCCTCTCCTTCTCAACCCCCTCCCTCTTCTCCCCCGCCGCCCACCCCCACGTTCGCCGGAAACCACTTCCCGCCGTTACCGTAAGAGCGTCGCGAGAACAAGCAGCTGACAGCAACAATAACAATAAAAACAACAACAACAATTACTACGCAGGTGGGAAAGTAGTCGACGAGAGTATGATCGTGCTCCGGAAACGGATTCATGAGATCAAGATGGCGGAGCAGAGGCAAGAACCGCCGGCGGATTGGCTGGATTGGGAGAAACGGTGGTATTCCGATTACGATTCCCATATCTGTGAAGCTTTAGGCGTTCCGCTCTCCTCTGCTCTTCTTCTTCACCGATTCCTCCACATCGCCGTCGCTCTTCTCGCCGGTTTCTCTCCAGCGTCTTGA

Coding sequence (CDS)

ATGGAATCCATTAATTCCCTCTCCTTCTCAACCCCCTCCCTCTTCTCCCCCGCCGCCCACCCCCACGTTCGCCGGAAACCACTTCCCGCCGTTACCGTAAGAGCGTCGCGAGAACAAGCAGCTGACAGCAACAATAACAATAAAAACAACAACAACAATTACTACGCAGGTGGGAAAGTAGTCGACGAGAGTATGATCGTGCTCCGGAAACGGATTCATGAGATCAAGATGGCGGAGCAGAGGCAAGAACCGCCGGCGGATTGGCTGGATTGGGAGAAACGGTGGTATTCCGATTACGATTCCCATATCTGTGAAGCTTTAGGCGTTCCGCTCTCCTCTGCTCTTCTTCTTCACCGATTCCTCCACATCGCCGTCGCTCTTCTCGCCGGTTTCTCTCCAGCGTCTTGA

Protein sequence

MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASREQAADSNNNNKNNNNNYYAGGKVVDESMIVLRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALGVPLSSALLLHRFLHIAVALLAGFSPAS

Homology

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BLAST of CsaV3_5G028510 vs. NCBI nr
Match: XP_004150478.1 (PREDICTED: uncharacterized protein LOC101215395 [Cucumis sativus] >KGN51505.1 hypothetical protein Csa_5G571480 [Cucumis sativus])

HSP 1 Score: 187.6 bits (475), Expect = 2.8e-44
Identity = 135/159 (84.91%), Postives = 135/159 (84.91%), Query Frame = 0


Query: 1   MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX 60
           MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX
Sbjct: 1   MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX 60

Query: 61  XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG------------ 120
           XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG            
Sbjct: 61  XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALGYLQSHLMNTRPS 120

Query: 121 ------------VPLSSALLLHRFLHIAVALLAGFSPAS 136
                       VPLSSALLLHRFLHIAVALLAGFSPAS
Sbjct: 121 VALGMLLLIIISVPLSSALLLHRFLHIAVALLAGFSPAS 159

[Close]

BLAST of CsaV3_5G028510 vs. NCBI nr
Match: XP_008437695.1 (PREDICTED: uncharacterized protein LOC103483039, partial [Cucumis melo])

HSP 1 Score: 147.1 bits (370), Expect = 4.3e-32
Identity = 113/143 (79.02%), Postives = 114/143 (79.72%), Query Frame = 0


Query: 17  PAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRKRIHEIK 76
           P  HPH RRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX RKRIHEIK
Sbjct: 13  PRPHPHGRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLRKRIHEIK 72

Query: 77  MAEQRQEPPADWLDWEKRWYSDYDSHICEALG------------------------VPLS 136
           MAEQRQEPPADWLDWEKR+YSDYDSHICEALG                        VPLS
Sbjct: 73  MAEQRQEPPADWLDWEKRYYSDYDSHICEALGYLQSHLMNTRPSVALGMLLLIIVSVPLS 132

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BLAST of CsaV3_5G028510 vs. NCBI nr
Match: XP_022152316.1 (uncharacterized protein LOC111020063 [Momordica charantia])

HSP 1 Score: 100.9 bits (250), Expect = 3.5e-18
Identity = 67/160 (41.88%), Postives = 82/160 (51.25%), Query Frame = 0


Query: 1   MESINSLSFSTPSL-FSPAA--HPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXX 60
           MES+NS++ ST SL F P++      RR+ LP+    +SR                    
Sbjct: 1   MESLNSVASSTNSLRFLPSSPISGGRRRRGLPSRVTASSR-----SREADNSGRNNHYAS 60

Query: 61  XXXXXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG--------- 120
                      RKRIHE+KMAE+   PPADWL+WEKR+Y DYDSH+CEALG         
Sbjct: 61  GKLVEESMIVLRKRIHEMKMAEREAAPPADWLEWEKRFYRDYDSHVCEALGYLQSHLMNT 120

Query: 121 ---------------VPLSSALLLHRFLHIAVALLAGFSP 134
                          VP+SSAL+LHRF HIA ALLAG  P
Sbjct: 121 RPSVALAFLTLLTLSVPVSSALILHRFFHIAAALLAGIHP 155

[Close]

BLAST of CsaV3_5G028510 vs. NCBI nr
Match: XP_022993164.1 (uncharacterized protein LOC111489262 [Cucurbita maxima])

HSP 1 Score: 99.4 bits (246), Expect = 1.0e-17
Identity = 52/86 (60.47%), Postives = 56/86 (65.12%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG-------------------- 128
           RKRIHEIKM EQ  EPP+DWLDWEKR YSDYDSHICEALG                    
Sbjct: 67  RKRIHEIKMVEQSHEPPSDWLDWEKRCYSDYDSHICEALGYLQSHLMNTRPSVSLGILLL 126

Query: 129 ----VPLSSALLLHRFLHIAVALLAG 131
               VPLSSA++LHRF+ IA ALLAG
Sbjct: 127 ITLSVPLSSAVILHRFIDIAAALLAG 152

[Close]

BLAST of CsaV3_5G028510 vs. NCBI nr
Match: XP_022939420.1 (uncharacterized protein LOC111445338 [Cucurbita moschata])

HSP 1 Score: 97.8 bits (242), Expect = 3.0e-17
Identity = 51/86 (59.30%), Postives = 56/86 (65.12%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG-------------------- 128
           RKRIHEIKM E+  EPP+DWLDWEKR YSDYDSHICEALG                    
Sbjct: 65  RKRIHEIKMVERSHEPPSDWLDWEKRCYSDYDSHICEALGYLQSHLMNTRPSVALGILLL 124

Query: 129 ----VPLSSALLLHRFLHIAVALLAG 131
               VPLSSA++LHRF+ IA ALLAG
Sbjct: 125 ITLSVPLSSAVILHRFIDIAAALLAG 150

[Close]

BLAST of CsaV3_5G028510 vs. TAIR10
Match: AT2G01300.1 (unknown protein)

HSP 1 Score: 65.9 bits (159), Expect = 2.3e-11
Identity = 30/60 (50.00%), Postives = 44/60 (73.33%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALGVPLSSALLLHRFLHIAVALL 128
           RKRIHE+KM E+  EPP+ W+DWEKR+Y+ YDS IC+++G  L  + L++    +A+A L
Sbjct: 64  RKRIHEMKMVERNYEPPSHWMDWEKRFYNSYDSVICDSVG--LLQSFLMNSRPTVAIATL 121

[Close]

BLAST of CsaV3_5G028510 vs. TAIR10
Match: AT1G15010.1 (unknown protein)

HSP 1 Score: 63.2 bits (152), Expect = 1.5e-10
Identity = 34/84 (40.48%), Postives = 46/84 (54.76%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEAL--------------------- 128
           RKRIHE+KM E+  EPP+ W+ WEKR+Y +YD+ IC+AL                     
Sbjct: 53  RKRIHEMKMVERNFEPPSHWMQWEKRFYCNYDATICDALTLLQTFLMNSRPSVAFGTCLL 112

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BLAST of CsaV3_5G028510 vs. TrEMBL
Match: tr|A0A0A0KPI5|A0A0A0KPI5_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G571480 PE=4 SV=1)

HSP 1 Score: 187.6 bits (475), Expect = 1.9e-44
Identity = 135/159 (84.91%), Postives = 135/159 (84.91%), Query Frame = 0


Query: 1   MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX 60
           MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX
Sbjct: 1   MESINSLSFSTPSLFSPAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXX 60

Query: 61  XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG------------ 120
           XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG            
Sbjct: 61  XXXXXXXXRKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALGYLQSHLMNTRPS 120

Query: 121 ------------VPLSSALLLHRFLHIAVALLAGFSPAS 136
                       VPLSSALLLHRFLHIAVALLAGFSPAS
Sbjct: 121 VALGMLLLIIISVPLSSALLLHRFLHIAVALLAGFSPAS 159

[Close]

BLAST of CsaV3_5G028510 vs. TrEMBL
Match: tr|A0A1S3AV87|A0A1S3AV87_CUCME (uncharacterized protein LOC103483039 OS=Cucumis melo OX=3656 GN=LOC103483039 PE=4 SV=1)

HSP 1 Score: 147.1 bits (370), Expect = 2.8e-32
Identity = 113/143 (79.02%), Postives = 114/143 (79.72%), Query Frame = 0


Query: 17  PAAHPHVRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRKRIHEIK 76
           P  HPH RRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX RKRIHEIK
Sbjct: 13  PRPHPHGRRKPLPAVTVRASRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLRKRIHEIK 72

Query: 77  MAEQRQEPPADWLDWEKRWYSDYDSHICEALG------------------------VPLS 136
           MAEQRQEPPADWLDWEKR+YSDYDSHICEALG                        VPLS
Sbjct: 73  MAEQRQEPPADWLDWEKRYYSDYDSHICEALGYLQSHLMNTRPSVALGMLLLIIVSVPLS 132

[Close]

BLAST of CsaV3_5G028510 vs. TrEMBL
Match: tr|A0A1S3V3X5|A0A1S3V3X5_VIGRR (uncharacterized protein LOC106771386 OS=Vigna radiata var. radiata OX=3916 GN=LOC106771386 PE=4 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 7.2e-12
Identity = 41/90 (45.56%), Postives = 51/90 (56.67%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG-------------------- 128
           RKRIHE+ M E+  EPP+DW+DWEKR+Y+ YDS ICEALG                    
Sbjct: 61  RKRIHEMNMIERNYEPPSDWMDWEKRYYTKYDSIICEALGVLQTQLMNTRPSFALGAMAL 120

Query: 129 ----VPLSSALLLHRFLHIAVALLAGFSPA 135
               VP SSA+    F+H A A+LAG  P+
Sbjct: 121 VAISVPTSSAVAFFHFVHFAKAVLAGVHPS 150

[Close]

BLAST of CsaV3_5G028510 vs. TrEMBL
Match: tr|A0A166EE71|A0A166EE71_DAUCA (Uncharacterized protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_007281 PE=4 SV=1)

HSP 1 Score: 74.7 bits (182), Expect = 1.8e-10
Identity = 38/82 (46.34%), Postives = 48/82 (58.54%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG-------------------- 127
           RKRIHE+KM E+  EPPADW+DWEKR+Y+ YD++ICEA+G                    
Sbjct: 62  RKRIHEMKMIERNYEPPADWMDWEKRYYASYDTYICEAMGFLQSQLMNTRPSLAIGMMAL 121

[Close]

BLAST of CsaV3_5G028510 vs. TrEMBL
Match: tr|A0A0R0EAH8|A0A0R0EAH8_SOYBN (Uncharacterized protein OS=Glycine max OX=3847 GN=100795681 PE=4 SV=1)

HSP 1 Score: 72.8 bits (177), Expect = 6.8e-10
Identity = 38/86 (44.19%), Postives = 49/86 (56.98%), Query Frame = 0


Query: 69  RKRIHEIKMAEQRQEPPADWLDWEKRWYSDYDSHICEALG-------------------- 128
           RKRIHE+ M E+  EPP+DW+DWEKR+Y+ YDS ICEA+G                    
Sbjct: 60  RKRIHEMNMIERNYEPPSDWMDWEKRYYNKYDSIICEAVGVLQSQLMNTRPSLALGAMAL 119

Query: 129 ----VPLSSALLLHRFLHIAVALLAG 131
               VP SSA+LL   + +A  +LAG
Sbjct: 120 VAISVPTSSAVLLFHLVELAKVVLAG 145

The following BLAST results are available for this feature:

BLAST of CsaV3_5G028510 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004150478.1	2.8e-44	84.91	PREDICTED: uncharacterized protein LOC101215395 [Cucumis sativus] >KGN51505.1 hy...	[more]
XP_008437695.1	4.3e-32	79.02	PREDICTED: uncharacterized protein LOC103483039, partial [Cucumis melo]	[more]
XP_022152316.1	3.5e-18	41.88	uncharacterized protein LOC111020063 [Momordica charantia]	[more]
XP_022993164.1	1.0e-17	60.47	uncharacterized protein LOC111489262 [Cucurbita maxima]	[more]
XP_022939420.1	3.0e-17	59.30	uncharacterized protein LOC111445338 [Cucurbita moschata]	[more]

BLAST of CsaV3_5G028510 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G01300.1	2.3e-11	50.00	unknown protein	[more]
AT1G15010.1	1.5e-10	40.48	unknown protein	[more]

BLAST of CsaV3_5G028510 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CsaV3_5G028510 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A0KPI5\|A0A0A0KPI5_CUCSA	1.9e-44	84.91	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G571480 PE=4 SV=1	[more]
tr\|A0A1S3AV87\|A0A1S3AV87_CUCME	2.8e-32	79.02	uncharacterized protein LOC103483039 OS=Cucumis melo OX=3656 GN=LOC103483039 PE=...	[more]
tr\|A0A1S3V3X5\|A0A1S3V3X5_VIGRR	7.2e-12	45.56	uncharacterized protein LOC106771386 OS=Vigna radiata var. radiata OX=3916 GN=LO...	[more]
tr\|A0A166EE71\|A0A166EE71_DAUCA	1.8e-10	46.34	Uncharacterized protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_007281 ...	[more]
tr\|A0A0R0EAH8\|A0A0R0EAH8_SOYBN	6.8e-10	44.19	Uncharacterized protein OS=Glycine max OX=3847 GN=100795681 PE=4 SV=1	[more]

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
CsaV3_5G028510.1	CsaV3_5G028510.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 37..56
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 33..56
None	No IPR available	PANTHER	PTHR33782	FAMILY NOT NAMED	coord: 34..109
None	No IPR available	PANTHER	PTHR33782:SF5	BY GENSCAN AND GENEFINDER-RELATED	coord: 34..109

Synteny

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


Gene	Orthologue	Organism	Block
CsaV3_5G028510	CSPI05G19680	Wild cucumber (PI 183967)	cpicucB284
CsaV3_5G028510	Cucsa.280450	Cucumber (Gy14) v1	cgycucB428
CsaV3_5G028510	CmaCh15G009500	Cucurbita maxima (Rimu)	cmacucB0355
CsaV3_5G028510	CmoCh15G009900	Cucurbita moschata (Rifu)	cmocucB0350
CsaV3_5G028510	CmoCh04G022000	Cucurbita moschata (Rifu)	cmocucB0878
CsaV3_5G028510	Cp4.1LG01g18200	Cucurbita pepo (Zucchini)	cpecucB0547
CsaV3_5G028510	Carg26350	Silver-seed gourd	carcucB0217
CsaV3_5G028510	Carg26046	Silver-seed gourd	carcucB0461
CsaV3_5G028510	Cla003918	Watermelon (97103) v1	cucwmB441
CsaV3_5G028510	MELO3C005312	Melon (DHL92) v3.5.1	cucmeB350
CsaV3_5G028510	ClCG01G006150	Watermelon (Charleston Gray)	cucwcgB394
CsaV3_5G028510	Lsi09G006510	Bottle gourd (USVL1VR-Ls)	cuclsiB352
CsaV3_5G028510	MELO3C005312.2	Melon (DHL92) v3.6.1	cucmedB342
CsaV3_5G028510	Cla97C01G006460	Watermelon (97103) v2	cucwmbB359
CsaV3_5G028510	Bhi12G000775	Wax gourd	cucwgoB461

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsaV3_5G028510	Cucumber (Chinese Long) v3	cuccucB199
CsaV3_5G028510	Silver-seed gourd	carcucB0887
CsaV3_5G028510	Silver-seed gourd	carcucB1098
CsaV3_5G028510	Cucumber (Gy14) v2	cgybcucB232
CsaV3_5G028510	Cucumber (Gy14) v2	cgybcucB239
CsaV3_5G028510	Cucumber (Gy14) v1	cgycucB440
CsaV3_5G028510	Cucurbita maxima (Rimu)	cmacucB0875
CsaV3_5G028510	Cucurbita maxima (Rimu)	cmacucB0888
CsaV3_5G028510	Cucurbita moschata (Rifu)	cmocucB0486
CsaV3_5G028510	Cucurbita moschata (Rifu)	cmocucB0863
CsaV3_5G028510	Cucurbita pepo (Zucchini)	cpecucB0053
CsaV3_5G028510	Cucurbita pepo (Zucchini)	cpecucB0212
CsaV3_5G028510	Wild cucumber (PI 183967)	cpicucB302
CsaV3_5G028510	Bottle gourd (USVL1VR-Ls)	cuclsiB391
CsaV3_5G028510	Melon (DHL92) v3.5.1	cucmeB376
CsaV3_5G028510	Melon (DHL92) v3.6.1	cucmedB366
CsaV3_5G028510	Watermelon (Charleston Gray)	cucwcgB412
CsaV3_5G028510	Watermelon (97103) v1	cucwmB424
CsaV3_5G028510	Watermelon (97103) v2	cucwmbB394
CsaV3_5G028510	Wax gourd	cucwgoB519