CSPI04G16960 (gene) Wild cucumber (PI 183967) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CSPI04G16960
Type	gene
Organism	Cucumis sativus (Wild cucumber (PI 183967))
Description	Retrovirus-related Pol polyprotein from transposon TNT 1-94
Location	Chr4 : 14372388 .. 14373308 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDSthree_prime_UTR

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

AAGTGTACCTCGGTCTTTTACTCTCATTAGTATTGATGATAAGAATTCTTGGATCCTGGACTCTGGTGCCACAAATCATTTAACTGGTTCCTCTTAAGACTTTGTGTCCTACATTCTGTGTGCTGGAAATGAGAAGATAGAATTGTTGATAGCTCCTTGGCTCCCATTGTCGGGAAAGGGCTGATTTCCCTTTTTGACGGGTTCTCATTATAAAATTTGTTGCATGTGCCACAAATTTCATATAATTTTATGTCGATTAGCAAGATTACTCAAGAATTAAACTGCAAAGCAACATTCTTACCTGGTTCTGTTTCTTTTCAAGACCTGAGCTCGAGGAGGATGATTAACACTGCCTGGCACAATAGGGATCTTTACTTGCTTGATGATGATGCCTCCTCTAGTAACATTTCTAGAACTAGTCTTTTACCTTCCTACTTTACCACTTCTGAAAAAGATCCTATGTTGTGGCATTTCTGTTTAGGCCATCCCAACTTTAAATATATGAGATACCTATTTCCTCATCTCTTTTCTAAAGTTGATATTTCTTCCTTAACTTGTGATGTGTGCAAAAAAGCTAAACAACACCGAGTCTCGTTTTCCTCGCAACCCTATAAGCCAACCCGACCTTTTACTCTTGTCCATAGTGATATTTGGTGACCATCCAAGGTCACTACCTCCTCCGAAAAACGATGATTTGACCTTTATTGATGACTATACTTGTCTTACTTGGGTTTTCTTGATCTCCGACAAATCTGAAGTTACCACTACATTCTGGGACTTCTATCACACCATAGAAATGAAATTCAATACAAAGATTGCAATCCTATGAGTGATAATGGACGTGAGTTTCAAAACCACTCTTAACGAATTCTTATCCACTAAAGGAATTGTTCACAAAAATTCTTGTGCTTACAATCTCCA

mRNA sequence

ATGTCGATTAGCAAGATTACTCAAGAATTAAACTGCAAAGCAACATTCTTACCTGGTTCTGTTTCTTTTCAAGACCTGAGCTCGAGGAGGATGATTAACACTGCCTGGCACAATAGGGATCTTTACTTGCTTGATGATGATGCCTCCTCTAGTAACATTTCTAGAACTAGTCTTTTACCTTCCTACTTTACCACTTCTGAAAAAGATCCTATGTTGTGGCATTTCTGTTTAGGCCATCCCAACTTTAAATATATGAGATACCTATTTCCTCATCTCTTTTCTAAAGTTGATATTTCTTCCTTAACTTGTGATGTGTGCAAAAAAGCTAAACAACACCGAGTCTCGTTTTCCTCGCAACCCTATAAGCCAACCCGACCTTTTACTCTTGTCCATAGTGATATTTGGTGA

Coding sequence (CDS)

ATGTCGATTAGCAAGATTACTCAAGAATTAAACTGCAAAGCAACATTCTTACCTGGTTCTGTTTCTTTTCAAGACCTGAGCTCGAGGAGGATGATTAACACTGCCTGGCACAATAGGGATCTTTACTTGCTTGATGATGATGCCTCCTCTAGTAACATTTCTAGAACTAGTCTTTTACCTTCCTACTTTACCACTTCTGAAAAAGATCCTATGTTGTGGCATTTCTGTTTAGGCCATCCCAACTTTAAATATATGAGATACCTATTTCCTCATCTCTTTTCTAAAGTTGATATTTCTTCCTTAACTTGTGATGTGTGCAAAAAAGCTAAACAACACCGAGTCTCGTTTTCCTCGCAACCCTATAAGCCAACCCGACCTTTTACTCTTGTCCATAGTGATATTTGGTGA

Homology

[Close]

BLAST of CSPI04G16960 vs. TrEMBL
Match: A5AYJ3_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_041073 PE=4 SV=1)

HSP 1 Score: 127.9 bits (320), Expect = 9.6e-27
Identity = 58/135 (42.96%), Postives = 85/135 (62.96%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +SISKITQ+  C+A F P    FQ+L+S R I  A     LY  ++ + S    +++   
Sbjct: 425 LSISKITQDHQCQANFYPSYCEFQELTSGRTIGNAREIGGLYFFENGSESRKPIQSTCFE 484

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
           S    S  D +LWH+ LGHP+F+Y+++LFP LF   + SS  C+ C+ AK HR SF  QP
Sbjct: 485 SISVASSDDIILWHYRLGHPSFQYLKHLFPSLFRNKNPSSFQCEFCELAKHHRTSFPLQP 544

Query: 121 YKPTRPFTLVHSDIW 136
           Y+ ++PF+L+HSD+W
Sbjct: 545 YRISKPFSLIHSDVW 559

[Close]

BLAST of CSPI04G16960 vs. TrEMBL
Match: A0A151T5R4_CAJCA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=KK1_016920 PE=4 SV=1)

HSP 1 Score: 126.3 bits (316), Expect = 2.8e-26
Identity = 61/135 (45.19%), Postives = 85/135 (62.96%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +S SK+T++LNC   F P    FQDLSS  MI +A  +  LY + +  S S+  +T  L 
Sbjct: 373 ISASKLTKDLNCAIIFYPSHCIFQDLSSGMMIGSAKEHNGLYFVSNSPSKSDSPQTISLS 432

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
              T S+ +  LWH  LGHPNF Y+++L+P LF   +ISS  C+ C  AKQ R ++ S P
Sbjct: 433 ---TVSDSNVFLWHNRLGHPNFNYLKHLYPDLFINKNISSFRCEHCILAKQSRTNYPSHP 492

Query: 121 YKPTRPFTLVHSDIW 136
           Y+P++PF L+HSDIW
Sbjct: 493 YQPSQPFHLIHSDIW 504

[Close]

BLAST of CSPI04G16960 vs. TrEMBL
Match: A0A151REW2_CAJCA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=KK1_037584 PE=4 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 7.6e-24
Identity = 58/132 (43.94%), Postives = 78/132 (59.09%), Query Frame = 1


Query: 4   SKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLPSYF 63
           SK+T + NC+         FQDLSS ++I  A     LYLL++   S    + +   S  
Sbjct: 61  SKLTLDHNCRINIWSSHCEFQDLSSGKIIRGARQVNGLYLLNNCLFSGRPEQQTCFNS-I 120

Query: 64  TTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQPYKP 123
           T  +KD +LWH+ LGHPN +Y+RYLFP LF   +  S  C+ C+ AK HR  F  QPYK 
Sbjct: 121 TVFDKDILLWHYRLGHPNVQYLRYLFPMLFMNKNQLSFKCESCELAKHHRAIFPPQPYKT 180

Query: 124 TRPFTLVHSDIW 136
           + PFT++HSDIW
Sbjct: 181 SEPFTMIHSDIW 191

[Close]

BLAST of CSPI04G16960 vs. TrEMBL
Match: A0A151TWF9_CAJCA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=KK1_010625 PE=4 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 7.6e-24
Identity = 60/135 (44.44%), Postives = 83/135 (61.48%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +S S +T++LNC   F P    FQDLSS  MI  A  +  LY + +  S S+ S+T+ L 
Sbjct: 57  ISASILTKDLNCAIVFYPSHCIFQDLSSGMMIGNAKEHNGLYFVSNSPSKSDSSQTTSLS 116

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
              T S  +  L H  LGHPNF Y+++L+  LF   +ISS TC+ C  AKQ R ++ S P
Sbjct: 117 ---TVSVSNVFLCHNRLGHPNFNYLKHLYLDLFINKNISSFTCEHCILAKQSRTNYPSHP 176

Query: 121 YKPTRPFTLVHSDIW 136
           Y+P++PF L+HSDIW
Sbjct: 177 YQPSQPFHLIHSDIW 188

[Close]

BLAST of CSPI04G16960 vs. TrEMBL
Match: A0A151TWG9_CAJCA (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=KK1_010635 PE=4 SV=1)

HSP 1 Score: 118.2 bits (295), Expect = 7.6e-24
Identity = 60/135 (44.44%), Postives = 83/135 (61.48%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +S S +T++LNC   F P    FQDLSS  MI  A  +  LY + +  S S+ S+T+ L 
Sbjct: 57  ISASILTKDLNCAIVFYPSHCIFQDLSSGMMIGNAKEHNGLYFVSNSPSKSDSSQTTSLS 116

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
              T S  +  L H  LGHPNF Y+++L+  LF   +ISS TC+ C  AKQ R ++ S P
Sbjct: 117 ---TVSVSNVFLCHNRLGHPNFNYLKHLYLDLFINKNISSFTCEHCILAKQSRTNYPSHP 176

Query: 121 YKPTRPFTLVHSDIW 136
           Y+P++PF L+HSDIW
Sbjct: 177 YQPSQPFHLIHSDIW 188

[Close]

BLAST of CSPI04G16960 vs. NCBI nr
Match: gi|659116318|ref|XP_008458017.1| (PREDICTED: uncharacterized protein LOC103497556 isoform X1 [Cucumis melo])

HSP 1 Score: 169.1 bits (427), Expect = 5.4e-39
Identity = 77/111 (69.37%), Postives = 91/111 (81.98%), Query Frame = 1


Query: 25  DLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLPSYFTTSEKDPMLWHFCLGHPNFKY 84
           DLS    I+TAWH+R LY+LDD  SSS+ISRTSL  SYF+TSE D MLWHF LGHPNF Y
Sbjct: 55  DLSLGWTIDTAWHSRRLYILDDHTSSSSISRTSLQSSYFSTSEHDFMLWHFRLGHPNFTY 114

Query: 85  MRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQPYKPTRPFTLVHSDIW 136
           M+YLF  LF K+D+S L+CDVC +AKQ+RVSF SQPYKPT+PFTL+H D+W
Sbjct: 115 MKYLFSRLFPKIDVSLLSCDVCIRAKQYRVSFPSQPYKPTQPFTLIHCDVW 165

[Close]

BLAST of CSPI04G16960 vs. NCBI nr
Match: gi|147819777|emb|CAN76196.1| (hypothetical protein VITISV_041073 [Vitis vinifera])

HSP 1 Score: 127.9 bits (320), Expect = 1.4e-26
Identity = 58/135 (42.96%), Postives = 85/135 (62.96%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +SISKITQ+  C+A F P    FQ+L+S R I  A     LY  ++ + S    +++   
Sbjct: 425 LSISKITQDHQCQANFYPSYCEFQELTSGRTIGNAREIGGLYFFENGSESRKPIQSTCFE 484

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
           S    S  D +LWH+ LGHP+F+Y+++LFP LF   + SS  C+ C+ AK HR SF  QP
Sbjct: 485 SISVASSDDIILWHYRLGHPSFQYLKHLFPSLFRNKNPSSFQCEFCELAKHHRTSFPLQP 544

Query: 121 YKPTRPFTLVHSDIW 136
           Y+ ++PF+L+HSD+W
Sbjct: 545 YRISKPFSLIHSDVW 559

[Close]

BLAST of CSPI04G16960 vs. NCBI nr
Match: gi|1012351199|gb|KYP62388.1| (Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan])

HSP 1 Score: 126.3 bits (316), Expect = 4.0e-26
Identity = 61/135 (45.19%), Postives = 85/135 (62.96%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +S SK+T++LNC   F P    FQDLSS  MI +A  +  LY + +  S S+  +T  L 
Sbjct: 373 ISASKLTKDLNCAIIFYPSHCIFQDLSSGMMIGSAKEHNGLYFVSNSPSKSDSPQTISLS 432

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
              T S+ +  LWH  LGHPNF Y+++L+P LF   +ISS  C+ C  AKQ R ++ S P
Sbjct: 433 ---TVSDSNVFLWHNRLGHPNFNYLKHLYPDLFINKNISSFRCEHCILAKQSRTNYPSHP 492

Query: 121 YKPTRPFTLVHSDIW 136
           Y+P++PF L+HSDIW
Sbjct: 493 YQPSQPFHLIHSDIW 504

[Close]

BLAST of CSPI04G16960 vs. NCBI nr
Match: gi|1012329482|gb|KYP41061.1| (Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan])

HSP 1 Score: 118.2 bits (295), Expect = 1.1e-23
Identity = 58/132 (43.94%), Postives = 78/132 (59.09%), Query Frame = 1


Query: 4   SKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLPSYF 63
           SK+T + NC+         FQDLSS ++I  A     LYLL++   S    + +   S  
Sbjct: 61  SKLTLDHNCRINIWSSHCEFQDLSSGKIIRGARQVNGLYLLNNCLFSGRPEQQTCFNS-I 120

Query: 64  TTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQPYKP 123
           T  +KD +LWH+ LGHPN +Y+RYLFP LF   +  S  C+ C+ AK HR  F  QPYK 
Sbjct: 121 TVFDKDILLWHYRLGHPNVQYLRYLFPMLFMNKNQLSFKCESCELAKHHRAIFPPQPYKT 180

Query: 124 TRPFTLVHSDIW 136
           + PFT++HSDIW
Sbjct: 181 SEPFTMIHSDIW 191

[Close]

BLAST of CSPI04G16960 vs. NCBI nr
Match: gi|1012360182|gb|KYP71366.1| (Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan])

HSP 1 Score: 118.2 bits (295), Expect = 1.1e-23
Identity = 60/135 (44.44%), Postives = 83/135 (61.48%), Query Frame = 1


Query: 1   MSISKITQELNCKATFLPGSVSFQDLSSRRMINTAWHNRDLYLLDDDASSSNISRTSLLP 60
           +S S +T++LNC   F P    FQDLSS  MI  A  +  LY + +  S S+ S+T+ L 
Sbjct: 57  ISASILTKDLNCAIVFYPSHCIFQDLSSGMMIGNAKEHNGLYFVSNSPSKSDSSQTTSLS 116

Query: 61  SYFTTSEKDPMLWHFCLGHPNFKYMRYLFPHLFSKVDISSLTCDVCKKAKQHRVSFSSQP 120
              T S  +  L H  LGHPNF Y+++L+  LF   +ISS TC+ C  AKQ R ++ S P
Sbjct: 117 ---TVSVSNVFLCHNRLGHPNFNYLKHLYLDLFINKNISSFTCEHCILAKQSRTNYPSHP 176

Query: 121 YKPTRPFTLVHSDIW 136
           Y+P++PF L+HSDIW
Sbjct: 177 YQPSQPFHLIHSDIW 188

The following BLAST results are available for this feature:

BLAST of CSPI04G16960 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CSPI04G16960 vs. TrEMBL


Match Name	E-value	Identity	Description
A5AYJ3_VITVI	9.6e-27	42.96	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_041073 PE=4 SV=1	[more]
A0A151T5R4_CAJCA	2.8e-26	45.19	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=...	[more]
A0A151REW2_CAJCA	7.6e-24	43.94	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=...	[more]
A0A151TWF9_CAJCA	7.6e-24	44.44	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=...	[more]
A0A151TWG9_CAJCA	7.6e-24	44.44	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Cajanus cajan GN=...	[more]

BLAST of CSPI04G16960 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CSPI04G16960 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659116318\|ref\|XP_008458017.1\|	5.4e-39	69.37	PREDICTED: uncharacterized protein LOC103497556 isoform X1 [Cucumis melo]	[more]
gi\|147819777\|emb\|CAN76196.1\|	1.4e-26	42.96	hypothetical protein VITISV_041073 [Vitis vinifera]	[more]
gi\|1012351199\|gb\|KYP62388.1\|	4.0e-26	45.19	Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan]	[more]
gi\|1012329482\|gb\|KYP41061.1\|	1.1e-23	43.94	Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan]	[more]
gi\|1012360182\|gb\|KYP71366.1\|	1.1e-23	44.44	Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Cajanus cajan]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR025724	GAG-pre-integrase_dom

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
CSPI04G16960.1	CSPI04G16960.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (PI183967)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR025724	GAG-pre-integrase domain	PFAM	PF13976	gag_pre-integrs	coord: 40..111 score: 9.8
None	No IPR available	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 1..135 score: 1.9
None	No IPR available	PANTHER	PTHR11439:SF185	SUBFAMILY NOT NAMED	coord: 1..135 score: 1.9

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
CSPI04G16960	Cucumber (Chinese Long) v2	cpicuB181
CSPI04G16960	Watermelon (97103) v1	cpiwmB351
CSPI04G16960	Bottle gourd (USVL1VR-Ls)	cpilsiB265
CSPI04G16960	Cucumber (Gy14) v2	cgybcpiB170
CSPI04G16960	Cucumber (Chinese Long) v3	cpicucB212
CSPI04G16960	Cucumber (Gy14) v1	cgycpiB400