Carg03028 (gene) Silver-seed gourd

Overview
NameCarg03028
Typegene
OrganismCucurbita argyrosperma (Silver-seed gourd)
Description50S ribosomal protein 6, chloroplastic
LocationCucurbita_argyrosperma_scaffold_008 : 1456680 .. 1457003 (-)
Genome Viewer
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.
ATGTCGATTTCCACCTTTTTCGGCGGTAGGATTTCGGTTCCGCCATTGTTGAATTCATCGGCAAGCAAAACAGCTCCATGCTCCGGCGGGAATTTGGTGATTGAATGCTCGTCGAGGCCAAGCAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAATCTCAGCCATGGGACATTCGGCGCAAGCCGACTGTATATCCTCCTCTGCCGCCTCTTCCACCGGACTGGACCGTGGTTTCATCAATCTCCAGCGATGAAATTGTCGAGGTAGCCGCTTCGAGTGCTTCGTCTGCTCAAGCACCGCCTACGACCGAGTAA

mRNA sequence

ATGTCGATTTCCACCTTTTTCGGCGGTAGGATTTCGGTTCCGCCATTGTTGAATTCATCGGCAAGCAAAACAGCTCCATGCTCCGGCGGGAATTTGGTGATTGAATGCTCGTCGAGGCCAAGCAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAATCTCAGCCATGGGACATTCGGCGCAAGCCGACTGTATATCCTCCTCTGCCGCCTCTTCCACCGGACTGGACCGTGGTTTCATCAATCTCCAGCGATGAAATTGTCGAGGTAGCCGCTTCGAGTGCTTCGTCTGCTCAAGCACCGCCTACGACCGAGTAA

Coding sequence (CDS)

ATGTCGATTTCCACCTTTTTCGGCGGTAGGATTTCGGTTCCGCCATTGTTGAATTCATCGGCAAGCAAAACAGCTCCATGCTCCGGCGGGAATTTGGTGATTGAATGCTCGTCGAGGCCAAGCAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAATCTCAGCCATGGGACATTCGGCGCAAGCCGACTGTATATCCTCCTCTGCCGCCTCTTCCACCGGACTGGACCGTGGTTTCATCAATCTCCAGCGATGAAATTGTCGAGGTAGCCGCTTCGAGTGCTTCGTCTGCTCAAGCACCGCCTACGACCGAGTAA

Protein sequence

MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWDIRRKPTVYPPLPPLPPDWTVVSSISSDEIVEVAASSASSAQAPPTTE
Homology
[Close]
BLAST of Carg03028 vs. NCBI nr
Match: XP_023536142.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 144.8 bits (364), Expect = 1.7e-31
Identity = 70/71 (98.59%), Postives = 71/71 (100.00%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRP+KKATAHHMKTRPRKSQPWD
Sbjct: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. NCBI nr
Match: XP_022936242.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita moschata])

HSP 1 Score: 143.7 bits (361), Expect = 3.7e-31
Identity = 69/71 (97.18%), Postives = 71/71 (100.00%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSIST+FGGRISVPPLLNSSASKTAPCSGGNLVIECSSRP+KKATAHHMKTRPRKSQPWD
Sbjct: 1  MSISTYFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. NCBI nr
Match: XP_022975752.1 (50S ribosomal protein 6, chloroplastic [Cucurbita maxima])

HSP 1 Score: 141.7 bits (356), Expect = 1.4e-30
Identity = 69/71 (97.18%), Postives = 70/71 (98.59%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTF GGRISVPPLLNSSASKTAPCSGGNLVIECSSRP+KKATAHHMKTRPRKSQPWD
Sbjct: 1  MSISTFSGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. NCBI nr
Match: XP_008466097.1 (PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis melo])

HSP 1 Score: 132.5 bits (332), Expect = 8.5e-28
Identity = 64/71 (90.14%), Postives = 67/71 (94.37%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTF G +ISVPPLLNSSASK APCSGGNL IECSSRP+KKATAHHMKTRP+KSQPWD
Sbjct: 1  MSISTFLGCKISVPPLLNSSASKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. NCBI nr
Match: XP_011652886.1 (PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis sativus] >KGN60302.1 hypothetical protein Csa_3G894500 [Cucumis sativus])

HSP 1 Score: 132.5 bits (332), Expect = 8.5e-28
Identity = 64/71 (90.14%), Postives = 67/71 (94.37%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTF G +ISVPPLLNSSASK APCS GNL+IECSSRP+KKATAHHMKTRPRKSQPWD
Sbjct: 1  MSISTFLGCKISVPPLLNSSASKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. TAIR10
Match: AT5G17870.1 (plastid-specific 50S ribosomal protein 6)

HSP 1 Score: 79.3 bits (194), Expect = 1.6e-15
Identity = 43/75 (57.33%), Postives = 51/75 (68.00%), Query Frame = 0 

Query: 1  MSISTFFG-GRISV---PPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKS 60
          MS+S  FG G ++V   P L      K     G  +VIECSSRP KK+TAHH KTRP+K+
Sbjct: 1  MSVSAIFGTGIVTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKKT 60

Query: 61 QPWDIRRKPTVYPPL 72
          QPWDI+RKPTVY PL
Sbjct: 61 QPWDIKRKPTVYAPL 75

[Close]
BLAST of Carg03028 vs. Swiss-Prot
Match: sp|P82411|PSRP6_SPIOL (50S ribosomal protein 6, chloroplastic OS=Spinacia oleracea OX=3562 GN=PSRP6 PE=1 SV=1)

HSP 1 Score: 81.6 bits (200), Expect = 5.7e-15
Identity = 42/82 (51.22%), Postives = 53/82 (64.63%), Query Frame = 0 

Query: 1  MSISTFFGGR-ISVPPLLNSSA----------SKTAPCSGGNLVIECSSRPSKKATAHHM 60
          MS+S  FG R +++P +L +S+          S    C GG + IECSSRP KK TAHHM
Sbjct: 1  MSVSAIFGARVVTIPSVLRTSSVDGRTVKLQPSTGGSCGGGVITIECSSRPQKKGTAHHM 60

Query: 61 KTRPRKSQPWDIRRKPTVYPPL 72
          KTRP+K+  WDI+R P VYPPL
Sbjct: 61 KTRPKKTARWDIKRGPAVYPPL 82

[Close]
BLAST of Carg03028 vs. Swiss-Prot
Match: sp|Q9FKP0|PSRP6_ARATH (50S ribosomal protein 6, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PSRP6 PE=3 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 2.8e-14
Identity = 43/75 (57.33%), Postives = 51/75 (68.00%), Query Frame = 0 

Query: 1  MSISTFFG-GRISV---PPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKS 60
          MS+S  FG G ++V   P L      K     G  +VIECSSRP KK+TAHH KTRP+K+
Sbjct: 1  MSVSAIFGTGIVTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKKT 60

Query: 61 QPWDIRRKPTVYPPL 72
          QPWDI+RKPTVY PL
Sbjct: 61 QPWDIKRKPTVYAPL 75

[Close]
BLAST of Carg03028 vs. Swiss-Prot
Match: sp|P11892|PSRP6_PEA (50S ribosomal protein 6, chloroplastic OS=Pisum sativum OX=3888 GN=PSRP6 PE=3 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 5.9e-12
Identity = 40/73 (54.79%), Postives = 49/73 (67.12%), Query Frame = 0 

Query: 2  SISTFFGGRISVPP---LLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQP 61
          S+S+ FG  +S+ P   L N +       + G L+IECSSRP KK+TAHHMKTRPRKS+ 
Sbjct: 3  SVSSIFGCGVSMAPNSSLRNKAIRTERRSACGGLLIECSSRPQKKSTAHHMKTRPRKSRL 62

Query: 62 WDIRRKPTVYPPL 72
           D  RKPTVY PL
Sbjct: 63 SDRNRKPTVYAPL 75

[Close]
BLAST of Carg03028 vs. TrEMBL
Match: tr|A0A1S3CQF4|A0A1S3CQF4_CUCME (50S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 PE=4 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 5.7e-28
Identity = 64/71 (90.14%), Postives = 67/71 (94.37%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTF G +ISVPPLLNSSASK APCSGGNL IECSSRP+KKATAHHMKTRP+KSQPWD
Sbjct: 1  MSISTFLGCKISVPPLLNSSASKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. TrEMBL
Match: tr|A0A0A0LHS7|A0A0A0LHS7_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 5.7e-28
Identity = 64/71 (90.14%), Postives = 67/71 (94.37%), Query Frame = 0 

Query: 1  MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
          MSISTF G +ISVPPLLNSSASK APCS GNL+IECSSRP+KKATAHHMKTRPRKSQPWD
Sbjct: 1  MSISTFLGCKISVPPLLNSSASKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61 IRRKPTVYPPL 72
          IRRKPTVYPPL
Sbjct: 61 IRRKPTVYPPL 71

[Close]
BLAST of Carg03028 vs. TrEMBL
Match: tr|A0A1U7ZDX7|A0A1U7ZDX7_NELNU (50S ribosomal protein 6, chloroplastic OS=Nelumbo nucifera OX=4432 GN=LOC104589113 PE=4 SV=1)

HSP 1 Score: 92.4 bits (228), Expect = 6.5e-16
Identity = 46/72 (63.89%), Postives = 53/72 (73.61%), Query Frame = 0 

Query: 1  MSISTFFGGRISVP-PLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPW 60
          MS+S  FG R+ VP   L   A K     G  +VIECSSRP KKATAHHMKTRP+K+QPW
Sbjct: 1  MSVSALFGTRVMVPNKSLAVGAPKGGRAGGMGMVIECSSRPKKKATAHHMKTRPKKTQPW 60

Query: 61 DIRRKPTVYPPL 72
          D+RR+PTVYPPL
Sbjct: 61 DVRRRPTVYPPL 72

[Close]
BLAST of Carg03028 vs. TrEMBL
Match: tr|A0A2R6QY39|A0A2R6QY39_ACTCH (50S ribosomal protein like OS=Actinidia chinensis var. chinensis OX=1590841 GN=CEY00_Acc12104 PE=4 SV=1)

HSP 1 Score: 90.5 bits (223), Expect = 2.5e-15
Identity = 52/83 (62.65%), Postives = 56/83 (67.47%), Query Frame = 0 

Query: 1  MSISTFFGGRISV---PPLLNSS------ASKTAP---CSGGNLVIECSSRPSKKATAHH 60
          MS+S  FG ++     PP L SS      A K  P     GG LVIECSSRP KKATAHH
Sbjct: 1  MSVSAVFGPKMVTLPNPPSLTSSRFRYGGAIKAVPRIDGCGGGLVIECSSRPQKKATAHH 60

Query: 61 MKTRPRKSQPWDIRRKPTVYPPL 72
          MKTRPRK+QPWDIRRKP VYPPL
Sbjct: 61 MKTRPRKTQPWDIRRKPAVYPPL 83

[Close]
BLAST of Carg03028 vs. TrEMBL
Match: tr|V4SGY3|V4SGY3_9ROSI (Uncharacterized protein OS=Citrus clementina OX=85681 GN=CICLE_v10002778mg PE=4 SV=1)

HSP 1 Score: 90.1 bits (222), Expect = 3.2e-15
Identity = 47/71 (66.20%), Postives = 52/71 (73.24%), Query Frame = 0 

Query: 1   MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPSKKATAHHMKTRPRKSQPWD 60
           MSIS+FFG +I V P L+S            LVIE SSRP KKATAHHMKTRPRK+QPWD
Sbjct: 39  MSISSFFGSQIVVVPNLSSKKLGVEGKCNVGLVIENSSRPQKKATAHHMKTRPRKTQPWD 98

Query: 61  IRRKPTVYPPL 72
           + RKPTVYPPL
Sbjct: 99  VNRKPTVYPPL 109

The following BLAST results are available for this feature:
BLAST of Carg03028 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_023536142.11.7e-3198.5950S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo][more]
XP_022936242.13.7e-3197.1850S ribosomal protein 6, chloroplastic-like [Cucurbita moschata][more]
XP_022975752.11.4e-3097.1850S ribosomal protein 6, chloroplastic [Cucurbita maxima][more]
XP_008466097.18.5e-2890.14PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis melo][more]
XP_011652886.18.5e-2890.14PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis sativus] >KGN60302.1 ... [more]
BLAST of Carg03028 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G17870.11.6e-1557.33plastid-specific 50S ribosomal protein 6[more]
BLAST of Carg03028 vs. Swiss-Prot
Match NameE-valueIdentityDescription
sp|P82411|PSRP6_SPIOL5.7e-1551.2250S ribosomal protein 6, chloroplastic OS=Spinacia oleracea OX=3562 GN=PSRP6 PE=... [more]
sp|Q9FKP0|PSRP6_ARATH2.8e-1457.3350S ribosomal protein 6, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PSRP6 ... [more]
sp|P11892|PSRP6_PEA5.9e-1254.7950S ribosomal protein 6, chloroplastic OS=Pisum sativum OX=3888 GN=PSRP6 PE=3 SV... [more]
BLAST of Carg03028 vs. TrEMBL
Match NameE-valueIdentityDescription
tr|A0A1S3CQF4|A0A1S3CQF4_CUCME5.7e-2890.1450S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 P... [more]
tr|A0A0A0LHS7|A0A0A0LHS7_CUCSA5.7e-2890.14Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1[more]
tr|A0A1U7ZDX7|A0A1U7ZDX7_NELNU6.5e-1663.8950S ribosomal protein 6, chloroplastic OS=Nelumbo nucifera OX=4432 GN=LOC1045891... [more]
tr|A0A2R6QY39|A0A2R6QY39_ACTCH2.5e-1562.6550S ribosomal protein like OS=Actinidia chinensis var. chinensis OX=1590841 GN=C... [more]
tr|V4SGY3|V4SGY3_9ROSI3.2e-1566.20Uncharacterized protein OS=Citrus clementina OX=85681 GN=CICLE_v10002778mg PE=4 ... [more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0019843rRNA binding
GO:0003735structural constituent of ribosome
Vocabulary: Cellular Component
TermDefinition
GO:0009507chloroplast
GO:0005840ribosome
Vocabulary: Biological Process
TermDefinition
GO:0006412translation
Vocabulary: INTERPRO
TermDefinition
IPR020526Ribosomal_L6_chp
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0042254 ribosome biogenesis
biological_process GO:0006412 translation
cellular_component GO:0009507 chloroplast
cellular_component GO:0005840 ribosome
molecular_function GO:0019843 rRNA binding
molecular_function GO:0003735 structural constituent of ribosome
Relationships

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

Feature NameUnique NameType
Carg03028-RACarg03028-RAmRNA


InterPro
Analysis Name: InterPro Annotations of silver-seed gourd
Date Performed: 2019-03-07
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR020526Ribosomal protein L6, chloroplastPFAMPF17257DUF5323coord: 28..86
e-value: 9.5E-37
score: 124.6
IPR020526Ribosomal protein L6, chloroplastPANTHERPTHR36798FAMILY NOT NAMEDcoord: 19..90
IPR020526Ribosomal protein L6, chloroplastPRODOMPD069352coord: 2..79
e-value: 1.0E-14
score: 188.0
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 39..72

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Carg03028Cla023093Watermelon (97103) v1carwmB0634
Carg03028Csa3G894500Cucumber (Chinese Long) v2carcuB0655
Carg03028MELO3C003483Melon (DHL92) v3.5.1carmeB0631
Carg03028ClCG11G014950Watermelon (Charleston Gray)carwcgB0610
Carg03028Cucsa.312360Cucumber (Gy14) v1carcgyB0712
Carg03028CmaCh09G006150Cucurbita maxima (Rimu)carcmaB0889
Carg03028Lsi04G023120Bottle gourd (USVL1VR-Ls)carlsiB575
Carg03028Cp4.1LG06g03890Cucurbita pepo (Zucchini)carcpeB0906
Carg03028CsGy3G043400Cucumber (Gy14) v2carcgybB0632
Carg03028MELO3C003483.2Melon (DHL92) v3.6.1carmedB0640
Carg03028Cla97C11G220940Watermelon (97103) v2carwmbB0656
Carg03028Bhi09G002152Wax gourdcarwgoB0752
The following gene(s) are paralogous to this gene:
GeneParalogueOrganismBlock
Carg03028Carg00400Silver-seed gourdcarcarB554
The following block(s) are covering this gene:
GeneOrganismBlock
Carg03028Watermelon (97103) v2carwmbB0655
Carg03028Wax gourdcarwgoB0751
Carg03028Silver-seed gourdcarcarB066
Carg03028Silver-seed gourdcarcarB424
Carg03028Cucurbita maxima (Rimu)carcmaB0892
Carg03028Cucurbita maxima (Rimu)carcmaB0897
Carg03028Cucurbita maxima (Rimu)carcmaB0900
Carg03028Cucurbita moschata (Rifu)carcmoB0873
Carg03028Cucurbita moschata (Rifu)carcmoB0865
Carg03028Cucurbita moschata (Rifu)carcmoB0868
Carg03028Cucurbita moschata (Rifu)carcmoB0877
Carg03028Cucurbita pepo (Zucchini)carcpeB0894
Carg03028Cucurbita pepo (Zucchini)carcpeB0899
Carg03028Cucurbita pepo (Zucchini)carcpeB0907
Carg03028Wild cucumber (PI 183967)carcpiB0665
Carg03028Cucumber (Chinese Long) v3carcucB0666