CsaV3_2G007440 (gene) Cucumber (Chinese Long) v3

Overview
NameCsaV3_2G007440
Typegene
OrganismCucumis sativus (Cucumber (Chinese Long) v3)
DescriptiontRNA-specific 2-thiouridylase
Locationchr2 : 3769240 .. 3770022 (-)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonpolypeptideCDS
Hold the cursor over a type above to highlight its positions in the sequence below.
ACAACTCATACTCATATACACCATAGGGGAGCCTCACCCATTCCTCTATAAATAATCTCTCCACTATCTTCTCTCATAGGCTTCAAAATCCACAACCAAAGTCATGATCAAGAGTTCTTGAAAGAGGTTAGAGGTTCGAATACTCATTGCATCTTGAGAAAATGAGTCTTTTGGAGATTGCTGGCATTGGAGGGCGTCGGTGGGAATGTCACTATGAGAAGCTAAATAGTGGAGGTAGTAATAGAGTGGTTGTAATGCGTAGACGTCGATGGGTTAAGAAGATGTTAAAGAGAGGAATGAAGGGTTTTCGATTGTATCGGTTTACGAGATTGAAGAGTAGTTTTGGTTTGAAGGTATCGTTTTTGATGTCGTTGTCGAGAAGAATTAGAGAGATTGTGAGTAGAATGAAGGTTGTTGAAGATGTATGCCCTAATATCATCTTCTCTACTCAATGGGGACTTCCTGTTCTATCTTATATTTGATTTTTCTTGTCCTAAGTGTTTGTTTAATTTTGTTGCTTTGACTATAGCTCACATGTGTTTCATTAATGAATGGATGGATAATTATTGTTGTTCATATAACTTTTTATGGTTTCTATATGTAATGTATAATATGGATTATTGAAGGACTGTTTGTGTACTAATTCTTTCCTTCATTCTCTTTAGTTTGTTCTACAAAATTCTTTCATCTTACCAACTTTTTCATTGTTTTTGGGATCTTAATGTATAAATGAGAAAGTTATTAGGATTCAAATTAGCTTAGAATTTAGTCTCTCAAAGTTAT

mRNA sequence

ATGAGTCTTTTGGAGATTGCTGGCATTGGAGGGCGTCGGTGGGAATGTCACTATGAGAAGCTAAATAGTGGAGGTAGTAATAGAGTGGTTGTAATGCGTAGACGTCGATGGGTTAAGAAGATGTTAAAGAGAGGAATGAAGGGTTTTCGATTGTATCGGTTTACGAGATTGAAGAGTAGTTTTGGTTTGAAGGTATCGTTTTTGATGTCGTTGTCGAGAAGAATTAGAGAGATTGTGAGTAGAATGAAGGTTGTTGAAGATGTATGCCCTAATATCATCTTCTCTACTCAATGGGGACTTCCTGTTCTATCTTATATTTGA

Coding sequence (CDS)

ATGAGTCTTTTGGAGATTGCTGGCATTGGAGGGCGTCGGTGGGAATGTCACTATGAGAAGCTAAATAGTGGAGGTAGTAATAGAGTGGTTGTAATGCGTAGACGTCGATGGGTTAAGAAGATGTTAAAGAGAGGAATGAAGGGTTTTCGATTGTATCGGTTTACGAGATTGAAGAGTAGTTTTGGTTTGAAGGTATCGTTTTTGATGTCGTTGTCGAGAAGAATTAGAGAGATTGTGAGTAGAATGAAGGTTGTTGAAGATGTATGCCCTAATATCATCTTCTCTACTCAATGGGGACTTCCTGTTCTATCTTATATTTGA

Protein sequence

MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI
Homology
[Close]
BLAST of CsaV3_2G007440 vs. NCBI nr
Match: KGN61039.1 (hypothetical protein Csa_2G035390 [Cucumis sativus])

HSP 1 Score: 213.4 bits (542), Expect = 3.8e-52
Identity = 106/106 (100.00%), Postives = 106/106 (100.00%), Query Frame = 0 

Query: 1   MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS 60
           MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS
Sbjct: 1   MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS 60

Query: 61  FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI 107
           FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI
Sbjct: 61  FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI 106

[Close]
BLAST of CsaV3_2G007440 vs. NCBI nr
Match: EOY11805.1 (Uncharacterized protein TCM_026865 [Theobroma cacao])

HSP 1 Score: 71.6 bits (174), Expect = 1.8e-09
Identity = 44/97 (45.36%), Postives = 57/97 (58.76%), Query Frame = 0 

Query: 9   IGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKVSFL 68
           +GG    C YEKL + G  R     RRRWVKKM   G+KG RL R  +LK+     V F 
Sbjct: 10  LGGHPVPCRYEKLRNVGDAR----PRRRWVKKM-SGGLKGLRLSRSRKLKTL--CSVVFA 69

Query: 69  MSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             ++R   +I  R+K+   +CPNIIF+T WGLP LS+
Sbjct: 70  NRITRIYADIAHRLKMDGTLCPNIIFATHWGLPTLSH 99

[Close]
BLAST of CsaV3_2G007440 vs. NCBI nr
Match: XP_009796114.1 (PREDICTED: uncharacterized protein LOC104242730 [Nicotiana sylvestris] >XP_009796115.1 PREDICTED: uncharacterized protein LOC104242730 [Nicotiana sylvestris])

HSP 1 Score: 64.7 bits (156), Expect = 2.2e-07
Identity = 43/103 (41.75%), Postives = 55/103 (53.40%), Query Frame = 0 

Query: 3   LLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFG 62
           LLE+ G  GR     YE+L      +V    RR W+ K +    KG +L R  +L     
Sbjct: 2   LLEM-GFQGR-----YERLGGVEDLKVATRPRRCWLIKKMNGRFKGIKLSRSRKLNWKAF 61

Query: 63  LKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             V     ++R  REIV RMK +EDVCP I+FS  WGLPVLS+
Sbjct: 62  SMVILPRRIARIYREIVKRMKNMEDVCPAIVFSCHWGLPVLSH 98

[Close]
BLAST of CsaV3_2G007440 vs. NCBI nr
Match: XP_015874776.1 (uncharacterized protein LOC107411665 [Ziziphus jujuba])

HSP 1 Score: 64.7 bits (156), Expect = 2.2e-07
Identity = 48/93 (51.61%), Postives = 58/93 (62.37%), Query Frame = 0 

Query: 18  YEKLNSG-GSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKVSFLMSLSRRI- 77
           YEKL+S     +V    RR WVKKM  R +KG RL R  RL     LKV  ++ LS RI 
Sbjct: 15  YEKLSSNMNIEKVASPGRRHWVKKMNGR-LKGLRLSRSRRLT----LKVFSVVVLSSRIG 74

Query: 78  ---REIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
               ++V+RMK +E  CP IIFSTQWGLPVLS+
Sbjct: 75  RIYTKVVNRMK-IEGGCPAIIFSTQWGLPVLSH 101

[Close]
BLAST of CsaV3_2G007440 vs. NCBI nr
Match: OAY43889.1 (hypothetical protein MANES_08G106000 [Manihot esculenta])

HSP 1 Score: 63.9 bits (154), Expect = 3.7e-07
Identity = 48/101 (47.52%), Postives = 61/101 (60.40%), Query Frame = 0 

Query: 6   IAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKV 65
           I  I G +    YEKL S    ++   RRR WVKK L  G+KG RL R  +L     L V
Sbjct: 3   IQDIIGLQLRYRYEKLIS-SDEKLAKSRRRSWVKK-LNGGLKGLRLSRSRKLTFK-ALSV 62

Query: 66  SFLMS-LSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             L S ++R   +I+SR+K +ED+ PNIIFSTQ GLPVLS+
Sbjct: 63  MVLPSRIARVYADIISRIK-IEDLYPNIIFSTQLGLPVLSH 99

[Close]
BLAST of CsaV3_2G007440 vs. TrEMBL
Match: tr|A0A0A0LJ29|A0A0A0LJ29_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_2G035390 PE=4 SV=1)

HSP 1 Score: 213.4 bits (542), Expect = 2.5e-52
Identity = 106/106 (100.00%), Postives = 106/106 (100.00%), Query Frame = 0 

Query: 1   MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS 60
           MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS
Sbjct: 1   MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS 60

Query: 61  FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI 107
           FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI
Sbjct: 61  FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSYI 106

[Close]
BLAST of CsaV3_2G007440 vs. TrEMBL
Match: tr|A0A061F3B0|A0A061F3B0_THECC (Uncharacterized protein OS=Theobroma cacao OX=3641 GN=TCM_026865 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-09
Identity = 44/97 (45.36%), Postives = 57/97 (58.76%), Query Frame = 0 

Query: 9   IGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKVSFL 68
           +GG    C YEKL + G  R     RRRWVKKM   G+KG RL R  +LK+     V F 
Sbjct: 10  LGGHPVPCRYEKLRNVGDAR----PRRRWVKKM-SGGLKGLRLSRSRKLKTL--CSVVFA 69

Query: 69  MSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             ++R   +I  R+K+   +CPNIIF+T WGLP LS+
Sbjct: 70  NRITRIYADIAHRLKMDGTLCPNIIFATHWGLPTLSH 99

[Close]
BLAST of CsaV3_2G007440 vs. TrEMBL
Match: tr|A0A1U7YA37|A0A1U7YA37_NICSY (uncharacterized protein LOC104242730 OS=Nicotiana sylvestris OX=4096 GN=LOC104242730 PE=4 SV=1)

HSP 1 Score: 64.7 bits (156), Expect = 1.4e-07
Identity = 43/103 (41.75%), Postives = 55/103 (53.40%), Query Frame = 0 

Query: 3   LLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFG 62
           LLE+ G  GR     YE+L      +V    RR W+ K +    KG +L R  +L     
Sbjct: 2   LLEM-GFQGR-----YERLGGVEDLKVATRPRRCWLIKKMNGRFKGIKLSRSRKLNWKAF 61

Query: 63  LKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             V     ++R  REIV RMK +EDVCP I+FS  WGLPVLS+
Sbjct: 62  SMVILPRRIARIYREIVKRMKNMEDVCPAIVFSCHWGLPVLSH 98

[Close]
BLAST of CsaV3_2G007440 vs. TrEMBL
Match: tr|A0A218WHP1|A0A218WHP1_PUNGR (Uncharacterized protein OS=Punica granatum OX=22663 GN=CDL15_Pgr018239 PE=4 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 2.5e-07
Identity = 43/105 (40.95%), Postives = 56/105 (53.33%), Query Frame = 0 

Query: 1   MSLLEIAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSS 60
           M L EI  + GR   C Y+KL         V +R RWVK+   R +KG R+ R  +L   
Sbjct: 1   MGLQEI--VAGRLRHCQYQKLMCSDDKGSEVRQRGRWVKRANGR-LKGIRISRSRKLTLR 60

Query: 61  FGLKVSFLMSLSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
                 F   ++R    IVSRM  V+ +CP I+FST WGLPVLS+
Sbjct: 61  AFSMYLFPSRIARIYSGIVSRMN-VDGICPAIVFSTHWGLPVLSH 101

[Close]
BLAST of CsaV3_2G007440 vs. TrEMBL
Match: tr|A0A2C9VF51|A0A2C9VF51_MANES (Uncharacterized protein OS=Manihot esculenta OX=3983 GN=MANES_08G106000 PE=4 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 2.5e-07
Identity = 48/101 (47.52%), Postives = 61/101 (60.40%), Query Frame = 0 

Query: 6   IAGIGGRRWECHYEKLNSGGSNRVVVMRRRRWVKKMLKRGMKGFRLYRFTRLKSSFGLKV 65
           I  I G +    YEKL S    ++   RRR WVKK L  G+KG RL R  +L     L V
Sbjct: 3   IQDIIGLQLRYRYEKLIS-SDEKLAKSRRRSWVKK-LNGGLKGLRLSRSRKLTFK-ALSV 62

Query: 66  SFLMS-LSRRIREIVSRMKVVEDVCPNIIFSTQWGLPVLSY 106
             L S ++R   +I+SR+K +ED+ PNIIFSTQ GLPVLS+
Sbjct: 63  MVLPSRIARVYADIISRIK-IEDLYPNIIFSTQLGLPVLSH 99

The following BLAST results are available for this feature:
BLAST of CsaV3_2G007440 vs. NCBI nr
Match NameE-valueIdentityDescription
KGN61039.13.8e-52100.00hypothetical protein Csa_2G035390 [Cucumis sativus][more]
EOY11805.11.8e-0945.36Uncharacterized protein TCM_026865 [Theobroma cacao][more]
XP_009796114.12.2e-0741.75PREDICTED: uncharacterized protein LOC104242730 [Nicotiana sylvestris] >XP_00979... [more]
XP_015874776.12.2e-0751.61uncharacterized protein LOC107411665 [Ziziphus jujuba][more]
OAY43889.13.7e-0747.52hypothetical protein MANES_08G106000 [Manihot esculenta][more]
BLAST of CsaV3_2G007440 vs. TAIR10
Match NameE-valueIdentityDescription
BLAST of CsaV3_2G007440 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of CsaV3_2G007440 vs. TrEMBL
Match NameE-valueIdentityDescription
tr|A0A0A0LJ29|A0A0A0LJ29_CUCSA2.5e-52100.00Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_2G035390 PE=4 SV=1[more]
tr|A0A061F3B0|A0A061F3B0_THECC1.2e-0945.36Uncharacterized protein OS=Theobroma cacao OX=3641 GN=TCM_026865 PE=4 SV=1[more]
tr|A0A1U7YA37|A0A1U7YA37_NICSY1.4e-0741.75uncharacterized protein LOC104242730 OS=Nicotiana sylvestris OX=4096 GN=LOC10424... [more]
tr|A0A218WHP1|A0A218WHP1_PUNGR2.5e-0740.95Uncharacterized protein OS=Punica granatum OX=22663 GN=CDL15_Pgr018239 PE=4 SV=1[more]
tr|A0A2C9VF51|A0A2C9VF51_MANES2.5e-0747.52Uncharacterized protein OS=Manihot esculenta OX=3983 GN=MANES_08G106000 PE=4 SV=... [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 NameUnique NameType
CsaV3_2G007440.1CsaV3_2G007440.1mRNA


InterPro
Analysis Name: InterPro Annotations of cucumber chineselong genome (v3)
Date Performed: 2019-03-04
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availablePANTHERPTHR35123FAMILY NOT NAMEDcoord: 9..105
NoneNo IPR availablePANTHERPTHR35123:SF1SUBFAMILY NOT NAMEDcoord: 9..105

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
CsaV3_2G007440CSPI02G05080Wild cucumber (PI 183967)cpicucB080
CsaV3_2G007440CmaCh05G010470Cucurbita maxima (Rimu)cmacucB0931
CsaV3_2G007440Cp4.1LG11g08470Cucurbita pepo (Zucchini)cpecucB0111
CsaV3_2G007440Cla020003Watermelon (97103) v1cucwmB159
CsaV3_2G007440Bhi06G001241Wax gourdcucwgoB141
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
CsaV3_2G007440Silver-seed gourdcarcucB0598
CsaV3_2G007440Silver-seed gourdcarcucB0952
CsaV3_2G007440Cucurbita maxima (Rimu)cmacucB0934
CsaV3_2G007440Cucumber (Gy14) v2cgybcucB064
CsaV3_2G007440Cucumber (Gy14) v1cgycucB097
CsaV3_2G007440Cucurbita maxima (Rimu)cmacucB0205
CsaV3_2G007440Cucurbita moschata (Rifu)cmocucB0187
CsaV3_2G007440Cucurbita moschata (Rifu)cmocucB0924
CsaV3_2G007440Cucurbita pepo (Zucchini)cpecucB0115
CsaV3_2G007440Cucurbita pepo (Zucchini)cpecucB1017
CsaV3_2G007440Bottle gourd (USVL1VR-Ls)cuclsiB108
CsaV3_2G007440Melon (DHL92) v3.5.1cucmeB141
CsaV3_2G007440Melon (DHL92) v3.6.1cucmedB134
CsaV3_2G007440Watermelon (Charleston Gray)cucwcgB137
CsaV3_2G007440Watermelon (97103) v2cucwmbB123
CsaV3_2G007440Wax gourdcucwgoB136
CsaV3_2G007440Wax gourdcucwgoB145