Spg019790 (gene) Sponge gourd (cylindrica) v1

Overview


Name	Spg019790
Type	gene
Organism	Luffa cylindrica (Sponge gourd (cylindrica) v1)
Description	RPOL4c domain-containing protein
Location	scaffold5: 35640470 .. 35640870 (+)
RNA-Seq Expression	Spg019790
Synteny	Spg019790

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide

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

AAAACATCAAAGGTGACAACAGACATTTATTTCCTTTGGCTGCTTGCAGAGTTCTTAAAGGTCAAGTGTTTAATGAATTGTGAAGTTTCTTTGATCCTTGAACACAAATATGAGCAGCTCCAGCAGATGTCTGAGGATCCAATGAATCAAGTTTCTCAGTGAGTTTTATGTTTATTCTTGATTGATTCATAAGTTAATTTAGAGTTTGTTTTGCTGGTTGAAATAGCTAAAATATATAGCCAAAGTTATGATATTCATTATGACATGTCATATGATGAGATTTTTAATTATGGTATTCTTTCTGTAGAGTGTTCGAAAAGTCATTGCAGTACGTGAAACGTTTCAGCCGCTATAAAAATCCTGACGCTGTTAGACAAGTACGAGAGTATCCCTTAAACTGA

mRNA sequence

AAAACATCAAAGGTGACAACAGACATTTATTTCCTTTGGCTGCTTGCAGAGTTCTTAAAGGTCAAGTGTTTAATGAATTGTGAAGTTTCTTTGATCCTTGAACACAAATATGAGCAGCTCCAGCAGATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTCGAAAAGTCATTGCAGTACGTGAAACGTTTCAGCCGCTATAAAAATCCTGACGCTGTTAGACAAGTACGAGAGTATCCCTTAAACTGA

Coding sequence (CDS)

AAAACATCAAAGGTGACAACAGACATTTATTTCCTTTGGCTGCTTGCAGAGTTCTTAAAGGTCAAGTGTTTAATGAATTGTGAAGTTTCTTTGATCCTTGAACACAAATATGAGCAGCTCCAGCAGATGTCTGAGGATCCAATGAATCAAGTTTCTCAAGTGTTCGAAAAGTCATTGCAGTACGTGAAACGTTTCAGCCGCTATAAAAATCCTGACGCTGTTAGACAAGTACGAGAGTATCCCTTAAACTGA

Protein sequence

KTSKVTTDIYFLWLLAEFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREYPLN

Homology

[Close]

BLAST of Spg019790 vs. NCBI nr
Match: PPR92416.1 (hypothetical protein GOBAR_AA28255 [Gossypium barbadense])

HSP 1 Score: 131.0 bits (328), Expect = 4.9e-27
Identity = 64/67 (95.52%), Postives = 66/67 (98.51%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYPLN 84
          VREYPLN
Sbjct: 77 VREYPLN 83

[Close]

BLAST of Spg019790 vs. NCBI nr
Match: ESQ40929.1 (hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum])

HSP 1 Score: 129.4 bits (324), Expect = 1.4e-26
Identity = 64/66 (96.97%), Postives = 65/66 (98.48%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYPL 83
          VREYPL
Sbjct: 77 VREYPL 82

[Close]

BLAST of Spg019790 vs. NCBI nr
Match: KAD7478443.1 (hypothetical protein E3N88_01579 [Mikania micrantha])

HSP 1 Score: 128.3 bits (321), Expect = 3.2e-26
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLIL+HKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILDHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYP 82
          VREYP
Sbjct: 77 VREYP 81

[Close]

BLAST of Spg019790 vs. NCBI nr
Match: KCW54360.1 (hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis])

HSP 1 Score: 128.3 bits (321), Expect = 3.2e-26
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYP 82
          VREYP
Sbjct: 77 VREYP 81

[Close]

BLAST of Spg019790 vs. NCBI nr
Match: AFK39331.1 (unknown [Lotus japonicus])

HSP 1 Score: 127.9 bits (320), Expect = 4.1e-26
Identity = 63/67 (94.03%), Postives = 64/67 (95.52%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQ S+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQSSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYPLN 84
          VREYP N
Sbjct: 77 VREYPAN 83

[Close]

BLAST of Spg019790 vs. ExPASy Swiss-Prot
Match: O48890 (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 120.9 bits (302), Expect = 6.6e-27
Identity = 60/63 (95.24%), Postives = 62/63 (98.41%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VRE 80
          VRE
Sbjct: 77 VRE 79

[Close]

BLAST of Spg019790 vs. ExPASy Swiss-Prot
Match: O15514 (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE=1 SV=1)

HSP 1 Score: 47.4 bits (111), Expect = 9.3e-05
Identity = 24/62 (38.71%), Postives = 40/62 (64.52%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EF   + L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y  RFSR+KN + +  
Sbjct: 25 EFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIAS 84

Query: 77 VR 79
          VR
Sbjct: 85 VR 84

[Close]

BLAST of Spg019790 vs. ExPASy Swiss-Prot
Match: Q9D7M8 (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d PE=1 SV=2)

HSP 1 Score: 47.4 bits (111), Expect = 9.3e-05
Identity = 24/62 (38.71%), Postives = 40/62 (64.52%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EF   + L+N EV ++LEH+ +Q +   ++   ++S+VF K+L Y  RFSR+KN + +  
Sbjct: 25 EFETAETLLNSEVHMLLEHRKQQNESAEDE--QELSEVFMKTLNYTARFSRFKNRETIAS 84

Query: 77 VR 79
          VR
Sbjct: 85 VR 84

[Close]

BLAST of Spg019790 vs. ExPASy TrEMBL
Match: A0A2P5WMU4 (RPOL4c domain-containing protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA28255 PE=4 SV=1)

HSP 1 Score: 131.0 bits (328), Expect = 2.4e-27
Identity = 64/67 (95.52%), Postives = 66/67 (98.51%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEV+LILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVALILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYPLN 84
          VREYPLN
Sbjct: 77 VREYPLN 83

[Close]

BLAST of Spg019790 vs. ExPASy TrEMBL
Match: V4LB78 (RPOL4c domain-containing protein OS=Eutrema salsugineum OX=72664 GN=EUTSA_v10014976mg PE=4 SV=1)

HSP 1 Score: 129.4 bits (324), Expect = 6.9e-27
Identity = 64/66 (96.97%), Postives = 65/66 (98.48%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYPL 83
          VREYPL
Sbjct: 77 VREYPL 82

[Close]

BLAST of Spg019790 vs. ExPASy TrEMBL
Match: A0A059ALU0 (RPOL4c domain-containing protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_I00318 PE=4 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 1.5e-26
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYP 82
          VREYP
Sbjct: 77 VREYP 81

[Close]

BLAST of Spg019790 vs. ExPASy TrEMBL
Match: A0A5N6Q1Z2 (RPOL4c domain-containing protein OS=Mikania micrantha OX=192012 GN=E3N88_01579 PE=4 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 1.5e-26
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLIL+HKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILDHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYP 82
          VREYP
Sbjct: 77 VREYP 81

[Close]

BLAST of Spg019790 vs. ExPASy TrEMBL
Match: A0A2P2JFE6 (RPOL4c domain-containing protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 1.5e-26
Identity = 63/65 (96.92%), Postives = 64/65 (98.46%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHKYEQLQQMS+DPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VREYP 82
          VREYP
Sbjct: 77 VREYP 81

[Close]

BLAST of Spg019790 vs. TAIR 10
Match: AT5G09920.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 120.9 bits (302), Expect = 4.7e-28
Identity = 60/63 (95.24%), Postives = 62/63 (98.41%), Query Frame = 0


Query: 17 EFLKVKCLMNCEVSLILEHKYEQLQQMSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76
          EFLK KCLMNCEVSLILEHK+EQLQQ+SEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 77 VRE 80
          VRE
Sbjct: 77 VRE 79

The following BLAST results are available for this feature:

BLAST of Spg019790 vs. NCBI nr


Match Name	E-value	Identity	Description
PPR92416.1	4.9e-27	95.52	hypothetical protein GOBAR_AA28255 [Gossypium barbadense]	[more]
ESQ40929.1	1.4e-26	96.97	hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum]	[more]
KAD7478443.1	3.2e-26	96.92	hypothetical protein E3N88_01579 [Mikania micrantha]	[more]
KCW54360.1	3.2e-26	96.92	hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis]	[more]
AFK39331.1	4.1e-26	94.03	unknown [Lotus japonicus]	[more]

BLAST of Spg019790 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
O48890	6.6e-27	95.24	DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB...	[more]
O15514	9.3e-05	38.71	DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE...	[more]
Q9D7M8	9.3e-05	38.71	DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d P...	[more]

BLAST of Spg019790 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A2P5WMU4	2.4e-27	95.52	RPOL4c domain-containing protein OS=Gossypium barbadense OX=3634 GN=GOBAR_AA2825...	[more]
V4LB78	6.9e-27	96.97	RPOL4c domain-containing protein OS=Eutrema salsugineum OX=72664 GN=EUTSA_v10014...	[more]
A0A059ALU0	1.5e-26	96.92	RPOL4c domain-containing protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_I0031...	[more]
A0A5N6Q1Z2	1.5e-26	96.92	RPOL4c domain-containing protein OS=Mikania micrantha OX=192012 GN=E3N88_01579 P...	[more]
A0A2P2JFE6	1.5e-26	96.92	RPOL4c domain-containing protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1	[more]

BLAST of Spg019790 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G09920.1	4.7e-28	95.24	RNA polymerase II, Rpb4, core protein	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (cylindrica) v1
Date Performed: 2022-08-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006590	RNA polymerase Rpb4/RPC9, core	SMART	SM00657	rpol4neu2	coord: 16..83 e-value: 0.0023 score: 8.1
IPR005574	RNA polymerase subunit RPB4/RPC9	PFAM	PF03874	RNA_pol_Rpb4	coord: 23..79 e-value: 2.9E-7 score: 30.8
IPR038324	Rpb4/RPC9 superfamily	GENE3D	1.20.1250.40		coord: 6..82 e-value: 3.5E-21 score: 77.3
None	No IPR available	PANTHER	PTHR21297:SF3	DNA-DIRECTED RNA POLYMERASE II SUBUNIT 4-LIKE	coord: 16..79
None	No IPR available	PANTHER	PTHR21297	DNA-DIRECTED RNA POLYMERASE II	coord: 16..79
IPR010997	HRDC-like superfamily	SUPERFAMILY	47819	HRDC-like	coord: 12..80

Relationships

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


Feature Name	Unique Name	Type
Spg019790.1	Spg019790.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0031990	mRNA export from nucleus in response to heat stress
biological_process	GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
biological_process	GO:0045948	positive regulation of translational initiation
biological_process	GO:0034402	recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
biological_process	GO:0006367	transcription initiation from RNA polymerase II promoter
biological_process	GO:0044237	cellular metabolic process
biological_process	GO:0006352	DNA-templated transcription, initiation
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0000932	P-body
cellular_component	GO:0005665	RNA polymerase II, core complex
cellular_component	GO:0030880	RNA polymerase complex
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0031369	translation initiation factor binding