Spg030887 (gene) Sponge gourd (cylindrica) v1

Overview
NameSpg030887
Typegene
OrganismLuffa cylindrica (Sponge gourd (cylindrica) v1)
DescriptionDNA-directed RNA polymerase subunit
Locationscaffold11: 25840269 .. 25842813 (-)
RNA-Seq ExpressionSpg030887
SyntenySpg030887
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGGAGTTTTGCCCAACTTGTGGGAACATGCTGCAATTTGAGTTGCCCAATATGGGTAAATCTTCTAGATTCTTTTGCCCGACTTGTCCATATGTGTCTTACTTGGAGAATAGGGTAAAGATCAAAAGAAAGCAACATTTGGTGAAAAAGGAATTAGAACCCATAATATCTGATGACGATATGAAAAATGCAGCTCAAACCGAAGATAAGGGGTTTGTCAGAAGAGGGTTTATAAATGAAGTGGATTGGACGGGTTATGGGGGAGGAAACTGGAAATAG

Coding sequence (CDS)

ATGGAGTTTTGCCCAACTTGTGGGAACATGCTGCAATTTGAGTTGCCCAATATGGGTAAATCTTCTAGATTCTTTTGCCCGACTTGTCCATATGTGTCTTACTTGGAGAATAGGGTAAAGATCAAAAGAAAGCAACATTTGGTGAAAAAGGAATTAGAACCCATAATATCTGATGACGATATGAAAAATGCAGCTCAAACCGAAGATAAGGGGTTTGTCAGAAGAGGGTTTATAAATGAAGTGGATTGGACGGGTTATGGGGGAGGAAACTGGAAATAG

Protein sequence

MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDDMKNAAQTEDKGFVRRGFINEVDWTGYGGGNWK
Homology
[Close]
BLAST of Spg030887 vs. NCBI nr
Match: KAG6597716.1 (DNA-directed RNA polymerase III subunit RPC10, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 149.8 bits (377), Expect = 1.1e-32
Identity = 72/82 (87.80%), Postives = 74/82 (90.24%), Query Frame = 0 

Query: 1   MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
           MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 38  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 97

Query: 61  MKNAAQTE----DKGFVRRGFI 79
           MKNAAQTE    + GF +  FI
Sbjct: 98  MKNAAQTEATCPNCGFGKAAFI 119

[Close]
BLAST of Spg030887 vs. NCBI nr
Match: KAG7029162.1 (DNA-directed RNA polymerase III subunit RPC10, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 149.8 bits (377), Expect = 1.1e-32
Identity = 72/82 (87.80%), Postives = 74/82 (90.24%), Query Frame = 0 

Query: 1   MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
           MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 44  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 103

Query: 61  MKNAAQTE----DKGFVRRGFI 79
           MKNAAQTE    + GF +  FI
Sbjct: 104 MKNAAQTEATCPNCGFGKAAFI 125

[Close]
BLAST of Spg030887 vs. NCBI nr
Match: XP_022932603.1 (DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita moschata] >XP_022932604.1 DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita moschata] >XP_022972319.1 DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita maxima] >XP_022972320.1 DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita maxima] >XP_023539106.1 DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita pepo subsp. pepo] >XP_023539107.1 DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 149.8 bits (377), Expect = 1.1e-32
Identity = 72/82 (87.80%), Postives = 74/82 (90.24%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE----DKGFVRRGFI 79
          MKNAAQTE    + GF +  FI
Sbjct: 61 MKNAAQTEATCPNCGFGKAAFI 82

[Close]
BLAST of Spg030887 vs. NCBI nr
Match: XP_038903069.1 (DNA-directed RNA polymerase III subunit RPC10-like [Benincasa hispida])

HSP 1 Score: 148.3 bits (373), Expect = 3.3e-32
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE 69
          MKNAAQTE
Sbjct: 61 MKNAAQTE 68

[Close]
BLAST of Spg030887 vs. NCBI nr
Match: XP_004141147.1 (DNA-directed RNA polymerase III subunit RPC10 [Cucumis sativus] >XP_008465337.1 PREDICTED: DNA-directed RNA polymerase III subunit RPC10-like [Cucumis melo] >XP_008465338.1 PREDICTED: DNA-directed RNA polymerase III subunit RPC10-like [Cucumis melo] >KGN59770.1 hypothetical protein Csa_002120 [Cucumis sativus])

HSP 1 Score: 148.3 bits (373), Expect = 3.3e-32
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE 69
          MKNAAQTE
Sbjct: 61 MKNAAQTE 68

[Close]
BLAST of Spg030887 vs. ExPASy TrEMBL
Match: A0A6J1IB59 (DNA-directed RNA polymerase subunit OS=Cucurbita maxima OX=3661 GN=LOC111470892 PE=3 SV=1)

HSP 1 Score: 149.8 bits (377), Expect = 5.5e-33
Identity = 72/82 (87.80%), Postives = 74/82 (90.24%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE----DKGFVRRGFI 79
          MKNAAQTE    + GF +  FI
Sbjct: 61 MKNAAQTEATCPNCGFGKAAFI 82

[Close]
BLAST of Spg030887 vs. ExPASy TrEMBL
Match: A0A6J1EXG3 (DNA-directed RNA polymerase subunit OS=Cucurbita moschata OX=3662 GN=LOC111439113 PE=3 SV=1)

HSP 1 Score: 149.8 bits (377), Expect = 5.5e-33
Identity = 72/82 (87.80%), Postives = 74/82 (90.24%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE----DKGFVRRGFI 79
          MKNAAQTE    + GF +  FI
Sbjct: 61 MKNAAQTEATCPNCGFGKAAFI 82

[Close]
BLAST of Spg030887 vs. ExPASy TrEMBL
Match: A0A1S3CQ50 (DNA-directed RNA polymerase subunit OS=Cucumis melo OX=3656 GN=LOC103502981 PE=3 SV=1)

HSP 1 Score: 148.3 bits (373), Expect = 1.6e-32
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE 69
          MKNAAQTE
Sbjct: 61 MKNAAQTE 68

[Close]
BLAST of Spg030887 vs. ExPASy TrEMBL
Match: A0A0A0LCM4 (DNA-directed RNA polymerase subunit OS=Cucumis sativus OX=3659 GN=Csa_3G844880 PE=3 SV=1)

HSP 1 Score: 148.3 bits (373), Expect = 1.6e-32
Identity = 68/68 (100.00%), Postives = 68/68 (100.00%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60

Query: 61 MKNAAQTE 69
          MKNAAQTE
Sbjct: 61 MKNAAQTE 68

[Close]
BLAST of Spg030887 vs. ExPASy TrEMBL
Match: A0A6J1DGL3 (DNA-directed RNA polymerase subunit OS=Momordica charantia OX=3673 GN=LOC111020260 PE=3 SV=1)

HSP 1 Score: 142.5 bits (358), Expect = 8.7e-31
Identity = 64/68 (94.12%), Postives = 67/68 (98.53%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYV +LENRVKIKRKQHL+KKELEPIISD+D
Sbjct: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVCHLENRVKIKRKQHLIKKELEPIISDED 60

Query: 61 MKNAAQTE 69
          MKNAAQTE
Sbjct: 61 MKNAAQTE 68

[Close]
BLAST of Spg030887 vs. TAIR 10
Match: AT4G07950.1 (DNA-directed RNA polymerase, subunit M, archaeal )

HSP 1 Score: 94.4 bits (233), Expect = 5.2e-20
Identity = 42/68 (61.76%), Postives = 55/68 (80.88%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGN+L++E    G SSRFFC TCPYV+ +E RV+IK+KQ LVKK +EP+++ DD
Sbjct: 1  MEFCPTCGNLLRYE---GGGSSRFFCSTCPYVANIERRVEIKKKQLLVKKSIEPVVTKDD 60

Query: 61 MKNAAQTE 69
          +  AA+TE
Sbjct: 61 IPTAAETE 65

[Close]
BLAST of Spg030887 vs. TAIR 10
Match: AT1G01210.1 (DNA-directed RNA polymerase, subunit M, archaeal )

HSP 1 Score: 90.9 bits (224), Expect = 5.8e-19
Identity = 39/68 (57.35%), Postives = 55/68 (80.88%), Query Frame = 0 

Query: 1  MEFCPTCGNMLQFELPNMGKSSRFFCPTCPYVSYLENRVKIKRKQHLVKKELEPIISDDD 60
          MEFCPTCGN+L++E    G +SRFFC TCPYV+Y++ +V+IK+KQ LVKK +E +++ DD
Sbjct: 1  MEFCPTCGNLLRYE---GGGNSRFFCSTCPYVAYIQRQVEIKKKQLLVKKSIEAVVTKDD 60

Query: 61 MKNAAQTE 69
          +  AA+TE
Sbjct: 61 IPTAAETE 65

The following BLAST results are available for this feature:
BLAST of Spg030887 vs. NCBI nr
Match NameE-valueIdentityDescription
KAG6597716.11.1e-3287.80DNA-directed RNA polymerase III subunit RPC10, partial [Cucurbita argyrosperma s... [more]
KAG7029162.11.1e-3287.80DNA-directed RNA polymerase III subunit RPC10, partial [Cucurbita argyrosperma s... [more]
XP_022932603.11.1e-3287.80DNA-directed RNA polymerase III subunit RPC10-like [Cucurbita moschata] >XP_0229... [more]
XP_038903069.13.3e-32100.00DNA-directed RNA polymerase III subunit RPC10-like [Benincasa hispida][more]
XP_004141147.13.3e-32100.00DNA-directed RNA polymerase III subunit RPC10 [Cucumis sativus] >XP_008465337.1 ... [more]
BLAST of Spg030887 vs. NCBI nr
Match NameE-valueIdentityDescription
BLAST of Spg030887 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
A0A6J1IB595.5e-3387.80DNA-directed RNA polymerase subunit OS=Cucurbita maxima OX=3661 GN=LOC111470892 ... [more]
A0A6J1EXG35.5e-3387.80DNA-directed RNA polymerase subunit OS=Cucurbita moschata OX=3662 GN=LOC11143911... [more]
A0A1S3CQ501.6e-32100.00DNA-directed RNA polymerase subunit OS=Cucumis melo OX=3656 GN=LOC103502981 PE=3... [more]
A0A0A0LCM41.6e-32100.00DNA-directed RNA polymerase subunit OS=Cucumis sativus OX=3659 GN=Csa_3G844880 P... [more]
A0A6J1DGL38.7e-3194.12DNA-directed RNA polymerase subunit OS=Momordica charantia OX=3673 GN=LOC1110202... [more]
BLAST of Spg030887 vs. TAIR 10
Match NameE-valueIdentityDescription
AT4G07950.15.2e-2061.76DNA-directed RNA polymerase, subunit M, archaeal [more]
AT1G01210.15.8e-1957.35DNA-directed RNA polymerase, subunit M, archaeal [more]
InterPro
Analysis Name: InterPro Annotations of Sponge gourd (cylindrica) v1
Date Performed: 2022-08-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001529DNA-directed RNA polymerase, M/15kDa subunitSMARTSM00661rpol9cneucoord: 2..56
e-value: 7.0E-8
score: 42.2
NoneNo IPR availableGENE3D2.20.70.10coord: 1..34
e-value: 4.6E-7
score: 31.4
NoneNo IPR availablePANTHERPTHR11239:SF12DNA-DIRECTED RNA POLYMERASE III SUBUNIT RPC10coord: 1..68
NoneNo IPR availableSUPERFAMILY57783Zinc beta-ribboncoord: 1..39
IPR029401Nudix hydrolase, N-terminalPFAMPF14803Nudix_N_2coord: 3..34
e-value: 8.8E-8
score: 32.0
IPR012164DNA-directed RNA polymerase subunit/transcription factor SPANTHERPTHR11239DNA-DIRECTED RNA POLYMERASEcoord: 1..68
IPR019761DNA-directed RNA polymerase M, 15kDa subunit, conserved sitePROSITEPS01030RNA_POL_M_15KDcoord: 3..29

Relationships

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

Feature NameUnique NameType
Spg030887.1Spg030887.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006386 termination of RNA polymerase III transcription
biological_process GO:0042779 tRNA 3'-trailer cleavage
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0005730 nucleolus
cellular_component GO:0005666 RNA polymerase III complex
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0008270 zinc ion binding