CsaV3_5G023960 (gene) Cucumber (Chinese Long) v3 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsaV3_5G023960
Type	gene
Organism	Cucumis sativus (Cucumber (Chinese Long) v3)
Description	Retrovirus-related Pol polyprotein from transposon TNT 1-94
Location	chr5 : 18503324 .. 18503527 (-)

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.

ATGGCTGATTGCAATGCCACAAAGTACCCGATGGAACCCAAGGCACAACTTCACAAAGAAACGAAAGGAGCACCAATTGATGCTACGGAGTACAGAAGCATCGTTGGTTGTCTTAGATACTTACTGAACACAAGGCCAGATCTTTCATATGCTGTTGGGATGGCGAGTAGGTATATAGAAAGGCCTACAACCATGCATTACAAG

mRNA sequence

ATGGCTGATTGCAATGCCACAAAGTACCCGATGGAACCCAAGGCACAACTTCACAAAGAAACGAAAGGAGCACCAATTGATGCTACGGAGTACAGAAGCATCGTTGGTTGTCTTAGATACTTACTGAACACAAGGCCAGATCTTTCATATGCTGTTGGGATGGCGAGTAGGTATATAGAAAGGCCTACAACCATGCATTACAAG

Coding sequence (CDS)

ATGGCTGATTGCAATGCCACAAAGTACCCGATGGAACCCAAGGCACAACTTCACAAAGAAACGAAAGGAGCACCAATTGATGCTACGGAGTACAGAAGCATCGTTGGTTGTCTTAGATACTTACTGAACACAAGGCCAGATCTTTCATATGCTGTTGGGATGGCGAGTAGGTATATAGAAAGGCCTACAACCATGCATTACAAG

Protein sequence

MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIERPTTMHYK

Homology

[Close]

BLAST of CsaV3_5G023960 vs. NCBI nr
Match: BAF22809.1 (Os08g0125300 [Oryza sativa Japonica Group] >BAG92574.1 unnamed protein product [Oryza sativa Japonica Group] >BAT03649.1 Os08g0125300 [Oryza sativa Japonica Group])

HSP 1 Score: 110.2 bits (274), Expect = 2.9e-21
Identity = 48/68 (70.59%), Postives = 57/68 (83.82%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M  CN T  PMEP++ LHK+  G PIDATEYR ++GCLRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1173 MQGCNPTSIPMEPRSLLHKDADGNPIDATEYRRVIGCLRYLLHTRPDLSYAVGVASRFME 1232

Query: 61   RPTTMHYK 69
            RPTTMH K
Sbjct: 1233 RPTTMHLK 1240

[Close]

BLAST of CsaV3_5G023960 vs. NCBI nr
Match: EEC84282.1 (hypothetical protein OsI_30754 [Oryza sativa Indica Group])

HSP 1 Score: 110.2 bits (274), Expect = 2.9e-21
Identity = 48/68 (70.59%), Postives = 57/68 (83.82%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M  CN T  PMEP++ LHK+  G PIDATEYR ++GCLRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1173 MQGCNPTSIPMEPRSLLHKDADGNPIDATEYRRVIGCLRYLLHTRPDLSYAVGVASRFME 1232

Query: 61   RPTTMHYK 69
            RPTTMH K
Sbjct: 1233 RPTTMHLK 1240

[Close]

BLAST of CsaV3_5G023960 vs. NCBI nr
Match: XP_020249213.1 (uncharacterized protein LOC109826599 [Asparagus officinalis])

HSP 1 Score: 106.3 bits (264), Expect = 4.2e-20
Identity = 44/68 (64.71%), Postives = 57/68 (83.82%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M++CN TKYPMEPK QL K+  G  ++ TEYR ++GCLRYL +TRPDLSY+VG+ SRY+E
Sbjct: 91  MSECNPTKYPMEPKLQLGKDVNGTLVNPTEYRRVIGCLRYLTHTRPDLSYSVGLVSRYME 150

Query: 61  RPTTMHYK 69
           RPTTMH++
Sbjct: 151 RPTTMHHQ 158

[Close]

BLAST of CsaV3_5G023960 vs. NCBI nr
Match: CAE04421.2 (OSJNBb0040D15.11 [Oryza sativa Japonica Group])

HSP 1 Score: 105.5 bits (262), Expect = 7.1e-20
Identity = 43/68 (63.24%), Postives = 58/68 (85.29%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M DCN+T  P+E ++QLHK+ +G+ +D TEYR ++GCLRYLL+TRPDLSYAVG+ SR++E
Sbjct: 95  MLDCNSTSIPIEHRSQLHKDAEGSTVDPTEYRRLIGCLRYLLHTRPDLSYAVGVVSRFME 154

Query: 61  RPTTMHYK 69
           RPT MH+K
Sbjct: 155 RPTVMHFK 162

[Close]

BLAST of CsaV3_5G023960 vs. NCBI nr
Match: ABF94034.1 (retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group])

HSP 1 Score: 102.8 bits (255), Expect = 4.6e-19
Identity = 43/68 (63.24%), Postives = 58/68 (85.29%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M +CN+   P++P++QL K+ +G P+DATEYR I+G LRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1155 MMECNSVSIPIDPRSQLSKDPEGHPVDATEYRRIIGSLRYLLHTRPDLSYAVGVASRFME 1214

Query: 61   RPTTMHYK 69
            RPT MH+K
Sbjct: 1215 RPTVMHFK 1222

[Close]

BLAST of CsaV3_5G023960 vs. TAIR10
Match: ATMG00810.1 (DNA/RNA polymerases superfamily protein)

HSP 1 Score: 50.8 bits (120), Expect = 3.8e-07
Identity = 26/63 (41.27%), Postives = 35/63 (55.56%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M DC     P+  K      T   P D +++RSIVG L+YL  TRPD+SYAV +  + + 
Sbjct: 71  MLDCKPMSTPLPLKLNSSVSTAKYP-DPSDFRSIVGALQYLTLTRPDISYAVNIVCQRMH 130

Query: 61  RPT 64
            PT
Sbjct: 131 EPT 132

[Close]

BLAST of CsaV3_5G023960 vs. TAIR10
Match: AT4G23160.1 (cysteine-rich RLK (RECEPTOR-like protein kinase) 8)

HSP 1 Score: 50.1 bits (118), Expect = 6.4e-07
Identity = 23/63 (36.51%), Postives = 33/63 (52.38%), Query Frame = 0


Query: 4   CNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIERPT 63
           C  +  PM+P       + G  +DA  YR ++G L YL  TR D+S+AV   S++ E P 
Sbjct: 351 CKPSSVPMDPSVTFSAHSGGDFVDAKAYRRLIGRLMYLQITRLDISFAVNKLSQFSEAPR 410

Query: 64  TMH 67
             H
Sbjct: 411 LAH 413

[Close]

BLAST of CsaV3_5G023960 vs. Swiss-Prot
Match: sp|Q9ZT94|POLR2_ARATH (Retrovirus-related Pol polyprotein from transposon RE2 OS=Arabidopsis thaliana OX=3702 GN=RE2 PE=4 SV=1)

HSP 1 Score: 60.5 bits (145), Expect = 8.6e-09
Identity = 34/62 (54.84%), Postives = 38/62 (61.29%), Query Frame = 0


Query: 6    ATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIERPTTM 65
            AT     PK  LH  TK  P D TEYR IVG L+YL  TRPDLSYAV   S+Y+  PT  
Sbjct: 1205 ATPMATSPKLTLHSGTK-LP-DPTEYRGIVGSLQYLAFTRPDLSYAVNRLSQYMHMPTDD 1264

Query: 66   HY 68
            H+
Sbjct: 1265 HW 1264

[Close]

BLAST of CsaV3_5G023960 vs. Swiss-Prot
Match: sp|Q94HW2|POLR1_ARATH (Retrovirus-related Pol polyprotein from transposon RE1 OS=Arabidopsis thaliana OX=3702 GN=RE1 PE=2 SV=1)

HSP 1 Score: 55.1 bits (131), Expect = 3.6e-07
Identity = 27/57 (47.37%), Postives = 34/57 (59.65%), Query Frame = 0


Query: 10   PMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIERPTTMH 67
            PM P  +L   +     D TEYR IVG L+YL  TRPD+SYAV   S+++  PT  H
Sbjct: 1224 PMAPSPKLSLYSGTKLTDPTEYRGIVGSLQYLAFTRPDISYAVNRLSQFMHMPTEEH 1280

[Close]

BLAST of CsaV3_5G023960 vs. Swiss-Prot
Match: sp|P92519|M810_ARATH (Uncharacterized mitochondrial protein AtMg00810 OS=Arabidopsis thaliana OX=3702 GN=AtMg00810 PE=4 SV=1)

HSP 1 Score: 50.8 bits (120), Expect = 6.8e-06
Identity = 26/63 (41.27%), Postives = 35/63 (55.56%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M DC     P+  K      T   P D +++RSIVG L+YL  TRPD+SYAV +  + + 
Sbjct: 71  MLDCKPMSTPLPLKLNSSVSTAKYP-DPSDFRSIVGALQYLTLTRPDISYAVNIVCQRMH 130

Query: 61  RPT 64
            PT
Sbjct: 131 EPT 132

[Close]

BLAST of CsaV3_5G023960 vs. Swiss-Prot
Match: sp|P25600|YCH4_YEAST (Putative transposon Ty5-1 protein YCL074W OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=TY5A PE=5 SV=2)

HSP 1 Score: 45.1 bits (105), Expect = 3.7e-04
Identity = 24/61 (39.34%), Postives = 34/61 (55.74%), Query Frame = 0


Query: 7   TKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNT-RPDLSYAVGMASRYIERPTTM 66
           T+ P+     L + T     D T Y+SIVG L +  NT RPD+SY V + SR++  P  +
Sbjct: 159 TQTPLCNSKPLFETTSPHLKDITPYQSIVGQLLFCANTGRPDISYPVSLLSRFLREPRAI 218

[Close]

BLAST of CsaV3_5G023960 vs. TrEMBL
Match: tr|A0A0A9FJ50|A0A0A9FJ50_ARUDO (Uncharacterized protein OS=Arundo donax OX=35708 PE=4 SV=1)

HSP 1 Score: 110.5 bits (275), Expect = 1.5e-21
Identity = 49/68 (72.06%), Postives = 59/68 (86.76%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M D N TKYPME KAQ+HK++ G P+DATEYR +VGCLRYLL+TRPDLS+AVG+ASR++E
Sbjct: 81  MEDYNPTKYPMEHKAQVHKDSDGQPVDATEYRRVVGCLRYLLHTRPDLSHAVGVASRHME 140

Query: 61  RPTTMHYK 69
           RPT MH K
Sbjct: 141 RPTVMHQK 148

[Close]

BLAST of CsaV3_5G023960 vs. TrEMBL
Match: tr|Q0J8A6|Q0J8A6_ORYSJ (Os08g0125300 protein OS=Oryza sativa subsp. japonica OX=39947 GN=Os08g0125300 PE=2 SV=1)

HSP 1 Score: 110.2 bits (274), Expect = 1.9e-21
Identity = 48/68 (70.59%), Postives = 57/68 (83.82%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M  CN T  PMEP++ LHK+  G PIDATEYR ++GCLRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1173 MQGCNPTSIPMEPRSLLHKDADGNPIDATEYRRVIGCLRYLLHTRPDLSYAVGVASRFME 1232

Query: 61   RPTTMHYK 69
            RPTTMH K
Sbjct: 1233 RPTTMHLK 1240

[Close]

BLAST of CsaV3_5G023960 vs. TrEMBL
Match: tr|B8BDZ6|B8BDZ6_ORYSI (Uncharacterized protein OS=Oryza sativa subsp. indica OX=39946 GN=OsI_30754 PE=4 SV=1)

HSP 1 Score: 110.2 bits (274), Expect = 1.9e-21
Identity = 48/68 (70.59%), Postives = 57/68 (83.82%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M  CN T  PMEP++ LHK+  G PIDATEYR ++GCLRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1173 MQGCNPTSIPMEPRSLLHKDADGNPIDATEYRRVIGCLRYLLHTRPDLSYAVGVASRFME 1232

Query: 61   RPTTMHYK 69
            RPTTMH K
Sbjct: 1233 RPTTMHLK 1240

[Close]

BLAST of CsaV3_5G023960 vs. TrEMBL
Match: tr|Q7XMW3|Q7XMW3_ORYSJ (OSJNBb0040D15.11 protein OS=Oryza sativa subsp. japonica OX=39947 GN=OSJNBb0040D15.11 PE=4 SV=2)

HSP 1 Score: 105.5 bits (262), Expect = 4.7e-20
Identity = 43/68 (63.24%), Postives = 58/68 (85.29%), Query Frame = 0


Query: 1   MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
           M DCN+T  P+E ++QLHK+ +G+ +D TEYR ++GCLRYLL+TRPDLSYAVG+ SR++E
Sbjct: 95  MLDCNSTSIPIEHRSQLHKDAEGSTVDPTEYRRLIGCLRYLLHTRPDLSYAVGVVSRFME 154

Query: 61  RPTTMHYK 69
           RPT MH+K
Sbjct: 155 RPTVMHFK 162

[Close]

BLAST of CsaV3_5G023960 vs. TrEMBL
Match: tr|Q10RM4|Q10RM4_ORYSJ (Retrotransposon protein, putative, unclassified OS=Oryza sativa subsp. japonica OX=39947 GN=LOC_Os03g05850 PE=4 SV=1)

HSP 1 Score: 102.8 bits (255), Expect = 3.0e-19
Identity = 43/68 (63.24%), Postives = 58/68 (85.29%), Query Frame = 0


Query: 1    MADCNATKYPMEPKAQLHKETKGAPIDATEYRSIVGCLRYLLNTRPDLSYAVGMASRYIE 60
            M +CN+   P++P++QL K+ +G P+DATEYR I+G LRYLL+TRPDLSYAVG+ASR++E
Sbjct: 1155 MMECNSVSIPIDPRSQLSKDPEGHPVDATEYRRIIGSLRYLLHTRPDLSYAVGVASRFME 1214

Query: 61   RPTTMHYK 69
            RPT MH+K
Sbjct: 1215 RPTVMHFK 1222

The following BLAST results are available for this feature:

BLAST of CsaV3_5G023960 vs. NCBI nr


Match Name	E-value	Identity	Description
BAF22809.1	2.9e-21	70.59	Os08g0125300 [Oryza sativa Japonica Group] >BAG92574.1 unnamed protein product [...	[more]
EEC84282.1	2.9e-21	70.59	hypothetical protein OsI_30754 [Oryza sativa Indica Group]	[more]
XP_020249213.1	4.2e-20	64.71	uncharacterized protein LOC109826599 [Asparagus officinalis]	[more]
CAE04421.2	7.1e-20	63.24	OSJNBb0040D15.11 [Oryza sativa Japonica Group]	[more]
ABF94034.1	4.6e-19	63.24	retrotransposon protein, putative, unclassified [Oryza sativa Japonica Group]	[more]

BLAST of CsaV3_5G023960 vs. TAIR10


Match Name	E-value	Identity	Description
ATMG00810.1	3.8e-07	41.27	DNA/RNA polymerases superfamily protein	[more]
AT4G23160.1	6.4e-07	36.51	cysteine-rich RLK (RECEPTOR-like protein kinase) 8	[more]

BLAST of CsaV3_5G023960 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9ZT94\|POLR2_ARATH	8.6e-09	54.84	Retrovirus-related Pol polyprotein from transposon RE2 OS=Arabidopsis thaliana O...	[more]
sp\|Q94HW2\|POLR1_ARATH	3.6e-07	47.37	Retrovirus-related Pol polyprotein from transposon RE1 OS=Arabidopsis thaliana O...	[more]
sp\|P92519\|M810_ARATH	6.8e-06	41.27	Uncharacterized mitochondrial protein AtMg00810 OS=Arabidopsis thaliana OX=3702 ...	[more]
sp\|P25600\|YCH4_YEAST	3.7e-04	39.34	Putative transposon Ty5-1 protein YCL074W OS=Saccharomyces cerevisiae (strain AT...	[more]

BLAST of CsaV3_5G023960 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0A9FJ50\|A0A0A9FJ50_ARUDO	1.5e-21	72.06	Uncharacterized protein OS=Arundo donax OX=35708 PE=4 SV=1	[more]
tr\|Q0J8A6\|Q0J8A6_ORYSJ	1.9e-21	70.59	Os08g0125300 protein OS=Oryza sativa subsp. japonica OX=39947 GN=Os08g0125300 PE...	[more]
tr\|B8BDZ6\|B8BDZ6_ORYSI	1.9e-21	70.59	Uncharacterized protein OS=Oryza sativa subsp. indica OX=39946 GN=OsI_30754 PE=4...	[more]
tr\|Q7XMW3\|Q7XMW3_ORYSJ	4.7e-20	63.24	OSJNBb0040D15.11 protein OS=Oryza sativa subsp. japonica OX=39947 GN=OSJNBb0040D...	[more]
tr\|Q10RM4\|Q10RM4_ORYSJ	3.0e-19	63.24	Retrotransposon protein, putative, unclassified OS=Oryza sativa subsp. japonica ...	[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_5G023960.1	CsaV3_5G023960.1	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	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 1..67
None	No IPR available	PANTHER	PTHR11439:SF204	SUBFAMILY NOT NAMED	coord: 1..67

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
CsaV3_5G023960	Silver-seed gourd	carcucB0564
CsaV3_5G023960	Silver-seed gourd	carcucB0869
CsaV3_5G023960	Cucumber (Gy14) v2	cgybcucB232
CsaV3_5G023960	Cucumber (Gy14) v1	cgycucB010
CsaV3_5G023960	Cucurbita maxima (Rimu)	cmacucB0343
CsaV3_5G023960	Cucurbita maxima (Rimu)	cmacucB0887
CsaV3_5G023960	Cucurbita moschata (Rifu)	cmocucB0337
CsaV3_5G023960	Cucurbita moschata (Rifu)	cmocucB0876
CsaV3_5G023960	Cucurbita pepo (Zucchini)	cpecucB0225
CsaV3_5G023960	Cucurbita pepo (Zucchini)	cpecucB0545
CsaV3_5G023960	Wild cucumber (PI 183967)	cpicucB284
CsaV3_5G023960	Bottle gourd (USVL1VR-Ls)	cuclsiB353
CsaV3_5G023960	Melon (DHL92) v3.5.1	cucmeB351
CsaV3_5G023960	Melon (DHL92) v3.6.1	cucmedB343
CsaV3_5G023960	Watermelon (Charleston Gray)	cucwcgB405
CsaV3_5G023960	Watermelon (97103) v1	cucwmB407
CsaV3_5G023960	Watermelon (97103) v2	cucwmbB386
CsaV3_5G023960	Wax gourd	cucwgoB463