Carg00400 (gene) Silver-seed gourd (SMH-JMG-627) v2

Overview


Name	Carg00400
Type	gene
Organism	Cucurbita argyrosperma subsp. argyrosperma cv. SMH-JMG-627 (Silver-seed gourd (SMH-JMG-627) v2)
Description	50S ribosomal protein 6, chloroplastic-like
Location	Carg_Chr04: 7032009 .. 7032335 (+)
RNA-Seq Expression	Carg00400
Synteny	Carg00400

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGTCGATTTCGACCTTTTTCGGCTGTAGGATTTCGGTTCCGCCATTGGTGAATCCGTCTGCAAGAAATGCTGCTGCTCCATGTTCCGGTGGGAGTTTGGCGATTGAATGCTCGTCGAGGCCGAACAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAGTCTCAGCCATGGGACATTAAGCGCAAGCCGACTGTGTATCCTCCTCTGCCGAATCTTCCACCGGACTGGACTTTTGTTTCACCAGTCTCTGGCGATGGTAATGTGGAGGTAGCCTCTTCGATTGCTTCATCGGAACAAGCACCGTCTACTAGCGAGTAA

mRNA sequence

ATGTCGATTTCGACCTTTTTCGGCTGTAGGATTTCGGTTCCGCCATTGGTGAATCCGTCTGCAAGAAATGCTGCTGCTCCATGTTCCGGTGGGAGTTTGGCGATTGAATGCTCGTCGAGGCCGAACAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAGTCTCAGCCATGGGACATTAAGCGCAAGCCGACTGTGTATCCTCCTCTGCCGAATCTTCCACCGGACTGGACTTTTGTTTCACCAGTCTCTGGCGATGGTAATGTGGAGGTAGCCTCTTCGATTGCTTCATCGGAACAAGCACCGTCTACTAGCGAGTAA

Coding sequence (CDS)

ATGTCGATTTCGACCTTTTTCGGCTGTAGGATTTCGGTTCCGCCATTGGTGAATCCGTCTGCAAGAAATGCTGCTGCTCCATGTTCCGGTGGGAGTTTGGCGATTGAATGCTCGTCGAGGCCGAACAAGAAGGCGACTGCACATCACATGAAAACGAGGCCACGGAAGTCTCAGCCATGGGACATTAAGCGCAAGCCGACTGTGTATCCTCCTCTGCCGAATCTTCCACCGGACTGGACTTTTGTTTCACCAGTCTCTGGCGATGGTAATGTGGAGGTAGCCTCTTCGATTGCTTCATCGGAACAAGCACCGTCTACTAGCGAGTAA

Protein sequence

MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPWDIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE

Homology

[Close]

BLAST of Carg00400 vs. NCBI nr
Match: KAG7031743.1 (50S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 216.9 bits (551), Expect = 8.8e-53
Identity = 108/108 (100.00%), Postives = 108/108 (100.00%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE
Sbjct: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 108

[Close]

BLAST of Carg00400 vs. NCBI nr
Match: XP_023523426.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 215.3 bits (547), Expect = 2.6e-52
Identity = 107/108 (99.07%), Postives = 107/108 (99.07%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTFFGCRISVPPLVNPSARNAAAPCSGGSL IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLVIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE
Sbjct: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 108

[Close]

BLAST of Carg00400 vs. NCBI nr
Match: XP_022940737.1 (50S ribosomal protein 6, chloroplastic-like [Cucurbita moschata])

HSP 1 Score: 213.0 bits (541), Expect = 1.3e-51
Identity = 106/108 (98.15%), Postives = 106/108 (98.15%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTFFGCRISVPPLV PSARNAAAPCSGGSL IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFFGCRISVPPLVKPSARNAAAPCSGGSLVIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE
Sbjct: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 108

[Close]

BLAST of Carg00400 vs. NCBI nr
Match: KAG6608106.1 (50S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 184.5 bits (467), Expect = 4.9e-43
Identity = 88/88 (100.00%), Postives = 88/88 (100.00%), Query Frame = 0


Query: 1  MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
          MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1  MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61 DIKRKPTVYPPLPNLPPDWTFVSPVSGD 89
          DIKRKPTVYPPLPNLPPDWTFVSPVSGD
Sbjct: 61 DIKRKPTVYPPLPNLPPDWTFVSPVSGD 88

[Close]

BLAST of Carg00400 vs. NCBI nr
Match: XP_011652886.1 (50S ribosomal protein 6, chloroplastic [Cucumis sativus])

HSP 1 Score: 168.7 bits (426), Expect = 2.8e-38
Identity = 88/108 (81.48%), Postives = 95/108 (87.96%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTF GC+ISVPPL+N SA + AAPCS G+L IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFLGCKISVPPLLNSSA-SKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DI+RKPTVYPPLP LPPDWT VS VSGD NVE+A SI+SS QAP TSE
Sbjct: 61  DIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIA-SISSSAQAPVTSE 106

[Close]

BLAST of Carg00400 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: 97.1 bits (240), Expect = 1.3e-19
Identity = 52/115 (45.22%), Postives = 71/115 (61.74%), Query Frame = 0


Query: 1   MSISTFFGCR-ISVPPLVNPSA---------RNAAAPCSGGSLAIECSSRPNKKATAHHM 60
           MS+S  FG R +++P ++  S+          +    C GG + IECSSRP KK TAHHM
Sbjct: 1   MSVSAIFGARVVTIPSVLRTSSVDGRTVKLQPSTGGSCGGGVITIECSSRPQKKGTAHHM 60

Query: 61  KTRPRKSQPWDIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPS 106
           KTRP+K+  WDIKR P VYPPLP LP +WT VS    + +   +++ +S+E A S
Sbjct: 61  KTRPKKTARWDIKRGPAVYPPLPPLPAEWTIVSSAVDEADSSSSTTSSSAEIAQS 115

[Close]

BLAST of Carg00400 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: 92.4 bits (228), Expect = 3.3e-18
Identity = 51/99 (51.52%), Postives = 61/99 (61.62%), Query Frame = 0


Query: 1  MSISTFFGCRISVPPLVNPSARNAAAPCSGG----SLAIECSSRPNKKATAHHMKTRPRK 60
          MS+S  FG  I V    +P  R    P  G      + IECSSRP KK+TAHH KTRP+K
Sbjct: 1  MSVSAIFGTGI-VTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKK 60

Query: 61 SQPWDIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVAS 96
          +QPWDIKRKPTVY PLP LP +W+  +  S DG    A+
Sbjct: 61 TQPWDIKRKPTVYAPLPPLPAEWSPFTLASDDGGAATAA 98

[Close]

BLAST of Carg00400 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: 89.0 bits (219), Expect = 3.6e-17
Identity = 56/111 (50.45%), Postives = 69/111 (62.16%), Query Frame = 0


Query: 2   SISTFFGCRISVPPLVNPSARNAA----APCSGGSLAIECSSRPNKKATAHHMKTRPRKS 61
           S+S+ FGC +S+ P  N S RN A       + G L IECSSRP KK+TAHHMKTRPRKS
Sbjct: 3   SVSSIFGCGVSMAP--NSSLRNKAIRTERRSACGGLLIECSSRPQKKSTAHHMKTRPRKS 62

Query: 62  QPWDIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           +  D  RKPTVY PLP LPPD+T V P         AS++  +   P+ S+
Sbjct: 63  RLSDRNRKPTVYAPLPPLPPDFTIVIPAD-------ASTVDFTPPPPTPSD 104

[Close]

BLAST of Carg00400 vs. ExPASy TrEMBL
Match: A0A6J1FKF7 (50S ribosomal protein 6, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC111446242 PE=4 SV=1)

HSP 1 Score: 213.0 bits (541), Expect = 6.2e-52
Identity = 106/108 (98.15%), Postives = 106/108 (98.15%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTFFGCRISVPPLV PSARNAAAPCSGGSL IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFFGCRISVPPLVKPSARNAAAPCSGGSLVIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE
Sbjct: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 108

[Close]

BLAST of Carg00400 vs. ExPASy TrEMBL
Match: A0A0A0LHS7 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1)

HSP 1 Score: 168.7 bits (426), Expect = 1.3e-38
Identity = 88/108 (81.48%), Postives = 95/108 (87.96%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTF GC+ISVPPL+N SA + AAPCS G+L IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTFLGCKISVPPLLNSSA-SKAAPCSAGNLLIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DI+RKPTVYPPLP LPPDWT VS VSGD NVE+A SI+SS QAP TSE
Sbjct: 61  DIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIA-SISSSAQAPVTSE 106

[Close]

BLAST of Carg00400 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: 167.2 bits (422), Expect = 3.9e-38
Identity = 87/108 (80.56%), Postives = 94/108 (87.04%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSIST+FG RISVPPL+N SA +  APCSGG+L IECSSRPNKKATAHHMKTRPRKSQPW
Sbjct: 1   MSISTYFGGRISVPPLLNSSA-SKTAPCSGGNLVIECSSRPNKKATAHHMKTRPRKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DI+RKPTVYPPLP LPPDWT VS +S D  VEVASSIASS QAP T+E
Sbjct: 61  DIRRKPTVYPPLPPLPPDWTAVSSISSDEIVEVASSIASSAQAPPTTE 107

[Close]

BLAST of Carg00400 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: 166.8 bits (421), Expect = 5.1e-38
Identity = 86/108 (79.63%), Postives = 95/108 (87.96%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTF GC+ISVPPL+N SA + AAPCSGG+L IECSSRPNKKATAHHMKTRP+KSQPW
Sbjct: 1   MSISTFLGCKISVPPLLNSSA-SKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DI+RKPTVYPPLP LPPDWT VS VSGD NVE+ S+ +SS QAP TSE
Sbjct: 61  DIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIVST-SSSAQAPLTSE 106

[Close]

BLAST of Carg00400 vs. ExPASy TrEMBL
Match: A0A1S3CQF4 (50S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 PE=4 SV=1)

HSP 1 Score: 166.8 bits (421), Expect = 5.1e-38
Identity = 86/108 (79.63%), Postives = 95/108 (87.96%), Query Frame = 0


Query: 1   MSISTFFGCRISVPPLVNPSARNAAAPCSGGSLAIECSSRPNKKATAHHMKTRPRKSQPW 60
           MSISTF GC+ISVPPL+N SA + AAPCSGG+L IECSSRPNKKATAHHMKTRP+KSQPW
Sbjct: 1   MSISTFLGCKISVPPLLNSSA-SKAAPCSGGNLPIECSSRPNKKATAHHMKTRPKKSQPW 60

Query: 61  DIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVASSIASSEQAPSTSE 109
           DI+RKPTVYPPLP LPPDWT VS VSGD NVE+ S+ +SS QAP TSE
Sbjct: 61  DIRRKPTVYPPLPPLPPDWTLVSSVSGDENVEIVST-SSSAQAPLTSE 106

[Close]

BLAST of Carg00400 vs. TAIR 10
Match: AT5G17870.1 (plastid-specific 50S ribosomal protein 6 )

HSP 1 Score: 92.4 bits (228), Expect = 2.3e-19
Identity = 51/99 (51.52%), Postives = 61/99 (61.62%), Query Frame = 0


Query: 1  MSISTFFGCRISVPPLVNPSARNAAAPCSGG----SLAIECSSRPNKKATAHHMKTRPRK 60
          MS+S  FG  I V    +P  R    P  G      + IECSSRP KK+TAHH KTRP+K
Sbjct: 1  MSVSAIFGTGI-VTVAASPVLRQFQVPKLGNGGGLGMVIECSSRPQKKSTAHHRKTRPKK 60

Query: 61 SQPWDIKRKPTVYPPLPNLPPDWTFVSPVSGDGNVEVAS 96
          +QPWDIKRKPTVY PLP LP +W+  +  S DG    A+
Sbjct: 61 TQPWDIKRKPTVYAPLPPLPAEWSPFTLASDDGGAATAA 98

The following BLAST results are available for this feature:

BLAST of Carg00400 vs. NCBI nr


Match Name	E-value	Identity	Description
KAG7031743.1	8.8e-53	100.00	50S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. a...	[more]
XP_023523426.1	2.6e-52	99.07	50S ribosomal protein 6, chloroplastic-like [Cucurbita pepo subsp. pepo]	[more]
XP_022940737.1	1.3e-51	98.15	50S ribosomal protein 6, chloroplastic-like [Cucurbita moschata]	[more]
KAG6608106.1	4.9e-43	100.00	50S ribosomal protein 6, chloroplastic, partial [Cucurbita argyrosperma subsp. s...	[more]
XP_011652886.1	2.8e-38	81.48	50S ribosomal protein 6, chloroplastic [Cucumis sativus]	[more]

BLAST of Carg00400 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
P82411	1.3e-19	45.22	50S ribosomal protein 6, chloroplastic OS=Spinacia oleracea OX=3562 GN=PSRP6 PE=...	[more]
Q9FKP0	3.3e-18	51.52	50S ribosomal protein 6, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=PSRP6 ...	[more]
P11892	3.6e-17	50.45	50S ribosomal protein 6, chloroplastic OS=Pisum sativum OX=3888 GN=PSRP6 PE=3 SV...	[more]

BLAST of Carg00400 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1FKF7	6.2e-52	98.15	50S ribosomal protein 6, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC...	[more]
A0A0A0LHS7	1.3e-38	81.48	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G894500 PE=4 SV=1	[more]
A0A6J1F7W7	3.9e-38	80.56	50S ribosomal protein 6, chloroplastic-like OS=Cucurbita moschata OX=3662 GN=LOC...	[more]
A0A5A7TB88	5.1e-38	79.63	50S ribosomal protein 6 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold...	[more]
A0A1S3CQF4	5.1e-38	79.63	50S ribosomal protein 6, chloroplastic OS=Cucumis melo OX=3656 GN=LOC103503622 P...	[more]

BLAST of Carg00400 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G17870.1	2.3e-19	51.52	plastid-specific 50S ribosomal protein 6	[more]

InterPro

Analysis Name: InterPro Annotations of Silver-seed gourd (SMH-JMG-627) v2
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR020526	Ribosomal protein L6, chloroplast	PFAM	PF17257	DUF5323	coord: 29..86 e-value: 8.6E-37 score: 124.8
IPR020526	Ribosomal protein L6, chloroplast	PANTHER	PTHR36798	50S RIBOSOMAL PROTEIN 6, CHLOROPLASTIC	coord: 1..94
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 40..73
None	No IPR available	PANTHER	PTHR36798:SF2	50S RIBOSOMAL PROTEIN 6, CHLOROPLASTIC	coord: 1..94

Relationships

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


Feature Name	Unique Name	Type
Carg00400-RA	Carg00400-RA	mRNA

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