Clc11G16110 (gene) Watermelon (cordophanus) v2

Overview
NameClc11G16110
Typegene
OrganismCitrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description50S ribosomal protein 6, chloroplastic
LocationClcChr11: 27078021 .. 27078643 (-)
RNA-Seq ExpressionClc11G16110
SyntenyClc11G16110
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

AACGAATGTAATCCCATTTGATAGGTCTGTACTGTCTTTCTTACGCTCTCGCTCCGAAGGAACAATGTCGATTTCCACCTTTTTCGGCTGCAGGATTTCGATTCCGCCATTGTTGAATTCAACTGCAAGCAAAGAAGCTCCATGCTCCGGCGGAAATTTGGTGATTGAATGCTCGTCGAGGCCGAACAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAATCTCAGCCATGGGACATTCGGCGCAAACCGACTGTGTATCCTCCTCTGCCGCCTCTTCCACCGGACTGGACCTTGGTTTCATCAGTTTCCGGCGATGAAAATGTCGAGGTAGCCTCGATTTCTTCGTCTGCACAAGCACCGCTTACTAGCGAGTAACACTAGTAACTCTTCTATCTGTTCTTTTTCCTGTATTATTTGTATCATCGATGTTTTAATTGGATTTTGGTTGAGGAAATTGTGTGGCTCTTCAATCTCTGGTTTGTCAATTCTGCTATCTGGAGTTGTTTTCTTTAACGAAATGCATCTCGATTGAGTTGTTAGAATCAAGAATTGGATGTTGCCTCTAACCTGTTGGTTTGTTGCTCGGAGTAGAACCCTAATACTTTCTGTATTT

Coding sequence (CDS)

ATGTCGATTTCCACCTTTTTCGGCTGCAGGATTTCGATTCCGCCATTGTTGAATTCAACTGCAAGCAAAGAAGCTCCATGCTCCGGCGGAAATTTGGTGATTGAATGCTCGTCGAGGCCGAACAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAATCTCAGCCATGGGACATTCGGCGCAAACCGACTGTGTATCCTCCTCTGCCGCCTCTTCCACCGGACTGGACCTTGGTTTCATCAGTTTCCGGCGATGAAAATGTCGAGGTAGCCTCGATTTCTTCGTCTGCACAAGCACCGCTTACTAGCGAGTAA

Protein sequence

MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWDIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE
Homology
BLAST of Clc11G16110 vs. NCBI nr
Match: XP_011652886.1 (50S ribosomal protein 6, chloroplastic [Cucumis sativus])

HSP 1 Score: 200.3 bits (508), Expect = 8.4e-48
Identity = 97/106 (91.51%), Postives = 103/106 (97.17%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF GC+IS+PPLLNS+ASK APCS GNL+IECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTFLGCKISVPPLLNSSASKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWTLVSSVSGDENVE+ASISSSAQAP+TSE
Sbjct: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIASISSSAQAPVTSE 106

BLAST of Clc11G16110 vs. NCBI nr
Match: XP_008466097.1 (PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis melo] >KAA0038635.1 50S ribosomal protein 6 [Cucumis melo var. makuwa] >TYK31235.1 50S ribosomal protein 6 [Cucumis melo var. makuwa])

HSP 1 Score: 198.0 bits (502), Expect = 4.2e-47
Identity = 96/106 (90.57%), Postives = 101/106 (95.28%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF GC+IS+PPLLNS+ASK APCSGGNL IECSSRPNKKATAHHMKTRP+KSQPWD
Sbjct: 1   MSISTFLGCKISVPPLLNSSASKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWTLVSSVSGDENVE+ S SSSAQAPLTSE
Sbjct: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIVSTSSSAQAPLTSE 106

BLAST of Clc11G16110 vs. NCBI nr
Match: XP_023536142.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 187.2 bits (474), Expect = 7.3e-44
Identity = 95/107 (88.79%), Postives = 101/107 (94.39%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTFFG RIS+PPLLNS+ASK APCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVA-SISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWT+VSS+S DE VEVA SI+SSAQAP T+E
Sbjct: 61  IRRKPTVYPPLPPLPPDWTVVSSISSDEIVEVASSIASSAQAPPTTE 107

BLAST of Clc11G16110 vs. NCBI nr
Match: XP_022936242.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita moschata])

HSP 1 Score: 185.3 bits (469), Expect = 2.8e-43
Identity = 94/107 (87.85%), Postives = 100/107 (93.46%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSIST+FG RIS+PPLLNS+ASK APCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTYFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVA-SISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWT VSS+S DE VEVA SI+SSAQAP T+E
Sbjct: 61  IRRKPTVYPPLPPLPPDWTAVSSISSDEIVEVASSIASSAQAPPTTE 107

BLAST of Clc11G16110 vs. NCBI nr
Match: KAG6591720.1 (50S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 184.9 bits (468), Expect = 3.6e-43
Identity = 94/107 (87.85%), Postives = 100/107 (93.46%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTFFG RIS+PPLLNS+ASK APCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTFFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEV-ASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWT+VSS+S DE VEV AS +SSAQAP T+E
Sbjct: 61  IRRKPTVYPPLPPLPPDWTVVSSISSDEIVEVAASSASSAQAPPTTE 107

BLAST of Clc11G16110 vs. ExPASy Swiss-Prot
Match: P82411 (50S ribosomal protein 6, chloroplastic OS=Spinacia oleracea OX=3562 GN=PSRP6 PE=1 SV=1)

HSP 1 Score: 105.5 bits (262), Expect = 3.7e-22
Identity = 55/111 (49.55%), Postives = 73/111 (65.77%), Query Frame = 0

Query: 1   MSISTFFGCR-ISIPPLLNSTA----------SKEAPCSGGNLVIECSSRPNKKATAHHM 60
           MS+S  FG R ++IP +L +++          S    C GG + IECSSRP KK TAHHM
Sbjct: 1   MSVSAIFGARVVTIPSVLRTSSVDGRTVKLQPSTGGSCGGGVITIECSSRPQKKGTAHHM 60

Query: 61  KTRPRKSQPWDIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQ 101
           KTRP+K+  WDI+R P VYPPLPPLP +WT+VSS   + +   ++ SSSA+
Sbjct: 61  KTRPKKTARWDIKRGPAVYPPLPPLPAEWTIVSSAVDEADSSSSTTSSSAE 111

BLAST of Clc11G16110 vs. ExPASy Swiss-Prot
Match: P11892 (50S ribosomal protein 6, chloroplastic OS=Pisum sativum OX=3888 GN=PSRP6 PE=3 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 1.7e-19
Identity = 50/83 (60.24%), Postives = 60/83 (72.29%), Query Frame = 0

Query: 2  SISTFFGCRISIPP---LLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQP 61
          S+S+ FGC +S+ P   L N     E   + G L+IECSSRP KK+TAHHMKTRPRKS+ 
Sbjct: 3  SVSSIFGCGVSMAPNSSLRNKAIRTERRSACGGLLIECSSRPQKKSTAHHMKTRPRKSRL 62

Query: 62 WDIRRKPTVYPPLPPLPPDWTLV 82
           D  RKPTVY PLPPLPPD+T+V
Sbjct: 63 SDRNRKPTVYAPLPPLPPDFTIV 85

BLAST of Clc11G16110 vs. ExPASy Swiss-Prot
Match: Q9FKP0 (50S ribosomal protein 6, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PSRP6 PE=3 SV=1)

HSP 1 Score: 94.0 bits (232), Expect = 1.1e-18
Identity = 50/98 (51.02%), Postives = 61/98 (62.24%), Query Frame = 0

Query: 1  MSISTFFGCRI----SIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKS 60
          MS+S  FG  I    + P L      K     G  +VIECSSRP KK+TAHH KTRP+K+
Sbjct: 1  MSVSAIFGTGIVTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKKT 60

Query: 61 QPWDIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVAS 95
          QPWDI+RKPTVY PLPPLP +W+  +  S D     A+
Sbjct: 61 QPWDIKRKPTVYAPLPPLPAEWSPFTLASDDGGAATAA 98

BLAST of Clc11G16110 vs. ExPASy TrEMBL
Match: A0A0A0LHS7 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1)

HSP 1 Score: 200.3 bits (508), Expect = 4.1e-48
Identity = 97/106 (91.51%), Postives = 103/106 (97.17%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF GC+IS+PPLLNS+ASK APCS GNL+IECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTFLGCKISVPPLLNSSASKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWTLVSSVSGDENVE+ASISSSAQAP+TSE
Sbjct: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIASISSSAQAPVTSE 106

BLAST of Clc11G16110 vs. ExPASy TrEMBL
Match: A0A5A7TB88 (50S ribosomal protein 6 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold455G005220 PE=4 SV=1)

HSP 1 Score: 198.0 bits (502), Expect = 2.0e-47
Identity = 96/106 (90.57%), Postives = 101/106 (95.28%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF GC+IS+PPLLNS+ASK APCSGGNL IECSSRPNKKATAHHMKTRP+KSQPWD
Sbjct: 1   MSISTFLGCKISVPPLLNSSASKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWTLVSSVSGDENVE+ S SSSAQAPLTSE
Sbjct: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIVSTSSSAQAPLTSE 106

BLAST of Clc11G16110 vs. ExPASy TrEMBL
Match: A0A1S3CQF4 (50S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 PE=4 SV=1)

HSP 1 Score: 198.0 bits (502), Expect = 2.0e-47
Identity = 96/106 (90.57%), Postives = 101/106 (95.28%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF GC+IS+PPLLNS+ASK APCSGGNL IECSSRPNKKATAHHMKTRP+KSQPWD
Sbjct: 1   MSISTFLGCKISVPPLLNSSASKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVASISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWTLVSSVSGDENVE+ S SSSAQAPLTSE
Sbjct: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIVSTSSSAQAPLTSE 106

BLAST of Clc11G16110 vs. ExPASy TrEMBL
Match: A0A6J1F7W7 (50S ribosomal protein 6, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC111442914 PE=4 SV=1)

HSP 1 Score: 185.3 bits (469), Expect = 1.4e-43
Identity = 94/107 (87.85%), Postives = 100/107 (93.46%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSIST+FG RIS+PPLLNS+ASK APCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTYFGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVA-SISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWT VSS+S DE VEVA SI+SSAQAP T+E
Sbjct: 61  IRRKPTVYPPLPPLPPDWTAVSSISSDEIVEVASSIASSAQAPPTTE 107

BLAST of Clc11G16110 vs. ExPASy TrEMBL
Match: A0A6J1IDX3 (50S ribosomal protein 6, chloroplastic OS=Cucurbita maxima OX=3661 GN=LOC111476133 PE=4 SV=1)

HSP 1 Score: 184.1 bits (466), Expect = 3.0e-43
Identity = 94/107 (87.85%), Postives = 100/107 (93.46%), Query Frame = 0

Query: 1   MSISTFFGCRISIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60
           MSISTF G RIS+PPLLNS+ASK APCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD
Sbjct: 1   MSISTFSGGRISVPPLLNSSASKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPWD 60

Query: 61  IRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVA-SISSSAQAPLTSE 107
           IRRKPTVYPPLPPLPPDWT+VSS+S DE VEVA SI+SSAQAP T+E
Sbjct: 61  IRRKPTVYPPLPPLPPDWTVVSSISSDEIVEVASSIASSAQAPPTTE 107

BLAST of Clc11G16110 vs. TAIR 10
Match: AT5G17870.1 (plastid-specific 50S ribosomal protein 6 )

HSP 1 Score: 94.0 bits (232), Expect = 7.9e-20
Identity = 50/98 (51.02%), Postives = 61/98 (62.24%), Query Frame = 0

Query: 1  MSISTFFGCRI----SIPPLLNSTASKEAPCSGGNLVIECSSRPNKKATAHHMKTRPRKS 60
          MS+S  FG  I    + P L      K     G  +VIECSSRP KK+TAHH KTRP+K+
Sbjct: 1  MSVSAIFGTGIVTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKKT 60

Query: 61 QPWDIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEVAS 95
          QPWDI+RKPTVY PLPPLP +W+  +  S D     A+
Sbjct: 61 QPWDIKRKPTVYAPLPPLPAEWSPFTLASDDGGAATAA 98

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
XP_011652886.18.4e-4891.5150S ribosomal protein 6, chloroplastic [Cucumis sativus][more]
XP_008466097.14.2e-4790.57PREDICTED: 50S ribosomal protein 6, chloroplastic [Cucumis melo] >KAA0038635.1 5... [more]
XP_023536142.17.3e-4488.7950S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo][more]
XP_022936242.12.8e-4387.8550S ribosomal protein 6, chloroplastic-like [Cucurbita moschata][more]
KAG6591720.13.6e-4387.8550S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. s... [more]
Match NameE-valueIdentityDescription
P824113.7e-2249.5550S ribosomal protein 6, chloroplastic OS=Spinacia oleracea OX=3562 GN=PSRP6 PE=... [more]
P118921.7e-1960.2450S ribosomal protein 6, chloroplastic OS=Pisum sativum OX=3888 GN=PSRP6 PE=3 SV... [more]
Q9FKP01.1e-1851.0250S ribosomal protein 6, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PSRP6 ... [more]
Match NameE-valueIdentityDescription
A0A0A0LHS74.1e-4891.51Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1[more]
A0A5A7TB882.0e-4790.5750S ribosomal protein 6 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold... [more]
A0A1S3CQF42.0e-4790.5750S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 P... [more]
A0A6J1F7W71.4e-4387.8550S ribosomal protein 6, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC... [more]
A0A6J1IDX33.0e-4387.8550S ribosomal protein 6, chloroplastic OS=Cucurbita maxima OX=3661 GN=LOC1114761... [more]
Match NameE-valueIdentityDescription
AT5G17870.17.9e-2051.02plastid-specific 50S ribosomal protein 6 [more]
InterPro
Analysis Name: InterPro Annotations of Watermelon (cordophanus) v2
Date Performed: 2022-01-31
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR020526Ribosomal protein L6, chloroplastPFAMPF17257DUF5323coord: 28..86
e-value: 1.4E-38
score: 130.6
IPR020526Ribosomal protein L6, chloroplastPANTHERPTHR3679850S RIBOSOMAL PROTEIN 6, CHLOROPLASTICcoord: 1..92
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 39..72
NoneNo IPR availablePANTHERPTHR36798:SF250S RIBOSOMAL PROTEIN 6, CHLOROPLASTICcoord: 1..92

Relationships

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

Feature NameUnique NameType
Clc11G16110.1Clc11G16110.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
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