Lsi03G002270 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi03G002270
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	DNA-directed RNA polymerase II subunit RPB4
Location	chr03 : 2855785 .. 2857450 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRCDSthree_prime_UTR

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

TTTTATTTCGCTCTTTGTGCTCTTTGTTCTAAGGTCCATAAAGAGAAAATATAAGACATGATAACTGACACTTGCTTCCTTTGTCTACCTACAGAGTTCTTAAAAGCCAAGTGTTTAATGAATTGCGAAGTTTCTTTGATCCTTGAACACAAGTATGAGCAGCTTCAACAAAGGGCCGAGGATCCAACAAATCAAGTTTCTCAGTGAGATTTATGTTTATTCTTTATTGATTCATAAGTTAAATTAGAGTTTTTCTTCTTTGTTGGAATAGCTAAAATATATACTTAAATTACGATATTCATTCTCACTTGCCATACAATAACAATGGATTTTTAATTTGGTCTTCTTCTGCAGAGTGTTTGAAAAGTCATTGCAGTATGTGAAACGCTTCAGTCGCTATAAGAACCCTGATGCTGTTAGACAAGTCCGAGAGTATCCTTTAAACTTTAATGTTTTCTATTTTATGGGATGGTGGGAAGGATGAGTTGTGCATATCTACTCTATGCTATAACTAACCCCATTTTGAACTAGATTAGCTTAAAGTTCATTATACCTTTACAGCCATACTATTTTATAGGTTTCCTAGGTATCCATCCGAAAATTATGTACTACTTTGATATTTAATTCATGGAGGGAAATACAATTTACTTTATCACCTAAGTTACAAACATTAAAGTTGGTTTCATTGTTTAAAATCGCATAAAAGTGGTTAAAACTTAACTACTACCATATAGAATTCTAAGCAGATATCAACTAGCTGAGTTTGAGGTATGTATACTGGATCATTTGGTTTAATTAACTTACTTATTATTATTCTATGGGAAGGTTTATCTCCTTTTGAAATTTGCAGCTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTACATCCATAGTTCCATCTTTGAAGGTATCTTTTGTCATTCCTTGTAATGCCTACATTAAAATATTTATTGGTATTTTAATTTTTATCATAAGTAGAGTAGTAACTTTTAAAAAGTTTACTGTGTGTTTTTCTAGTTTACTGTGTGTTTTTCTTTCAACAATGAATATGCATCGAGTTTTAAATTACTACTAAAAAGTTTTAAAACTAAAAATGTAATTTGAAAAAAAAAAAGAAAGACAAAAAAATGAGTCCTTAAACTTATACGAGTGTTAAGATTGAACCCTCTAACTTACGATATTTGTAGAAATTGGACCCCTAAATGATAAAAATTGAACTCGTAAATTTAAATAGTTATAATTTCTACAATTATGTGAGTTTGATGGTCCAATTTTAACAGTTACAGCTTCGAAAAGTAAAAACAATGTTTATAGATAGAGTAGACTTGCTTATAAATACTTTTGTTGTTTTCAGACTAAAGGAAGGGTGCATGACGATGAAGCTATAGAGAAGATGTTGAATGATCTTTCATTAATAAAAAAGTTTGAGTAGTTAGCTTTCTAAATCTTGCTTAAATATTTTTTTTGTTTATTTTTTGTTTTTTTGACATTTTCTCACCTAAAACAATCGATAATTGTACCCTTCTTATCACAGTTTTATAATTGTATGGATAACTTTGTAAATGGGATCCTTACCAAATCTCCAATCTAAATTTAAGCTGTATACTATTTTTTCTTTAAAAAAAATTATTTATTAATAACATAAATGCAACCT

mRNA sequence

TTTTATTTCGCTCTTTGTGCTCTTTGTTCTAAGGTCCATAAAGAGAAAATATAAGACATGATAACTGACACTTGCTTCCTTTGTCTACCTACAGAGTTCTTAAAAGCCAAGTGTTTAATGAATTGCGAAGTTTCTTTGATCCTTGAACACAAGTATGAGCAGCTTCAACAAAGGGCCGAGGATCCAACAAATCAAGTTTCTCAAGTGTTTGAAAAGTCATTGCAGTATGTGAAACGCTTCAGTCGCTATAAGAACCCTGATGCTGTTAGACAAGTCCGAGAGTATCCTTTAAACTTTAATGTTTTCTATTTTATGGGATGGTGGGAAGGATGAGTTGTGCATATCTACTCTATGCTATAACTAACCCCATTTTGAACTAGATTAGCTTAAAGTTCATTATACCTTTACAGCCATACTATTTTATAGGTTTCCTAGGTATCCATCCGAAAATTATGTACTACTTTGATATTTAATTCATGGAGGGAAATACAATTTACTTTATCACCTAAGTTACAAACATTAAAGTTGGTTTCATTGTTTAAAATCGCATAAAAGTGGTTAAAACTTAACTACTACCATATAGAATTCTAAGCAGATATCAACTAGCTGAGTTTGAGCTATGTGTTCTTGGCAACCTTTGCCCTGAAACTGTGGAGGAAGCTACATCCATAGTTCCATCTTTGAAGACTAAAGGAAGGGTGCATGACGATGAAGCTATAGAGAAGATGTTGAATGATCTTTCATTAATAAAAAAGTTTGAGTAGTTAGCTTTCTAAATCTTGCTTAAATATTTTTTTTGTTTATTTTTTGTTTTTTTGACATTTTCTCACCTAAAACAATCGATAATTGTACCCTTCTTATCACAGTTTTATAATTGTATGGATAACTTTGTAAATGGGATCCTTACCAAATCTCCAATCTAAATTTAAGCTGTATACTATTTTTTCTTTAAAAAAAATTATTTATTAATAACATAAATGCAACCT

Coding sequence (CDS)

ATGATAACTGACACTTGCTTCCTTTGTCTACCTACAGAGTTCTTAAAAGCCAAGTGTTTAATGAATTGCGAAGTTTCTTTGATCCTTGAACACAAGTATGAGCAGCTTCAACAAAGGGCCGAGGATCCAACAAATCAAGTTTCTCAAGTGTTTGAAAAGTCATTGCAGTATGTGAAACGCTTCAGTCGCTATAAGAACCCTGATGCTGTTAGACAAGTCCGAGAGTATCCTTTAAACTTTAATGTTTTCTATTTTATGGGATGGTGGGAAGGATGA

Protein sequence

MITDTCFLCLPTEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREYPLNFNVFYFMGWWEG

Homology

[Close]

BLAST of Lsi03G002270 vs. Swiss-Prot
Match: NRPB4_ARATH (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 120.2 bits (300), Expect = 1.2e-26
Identity = 59/63 (93.65%), Postives = 61/63 (96.83%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VRE 76
          VRE
Sbjct: 77 VRE 79

[Close]

BLAST of Lsi03G002270 vs. Swiss-Prot
Match: RPB4_HUMAN (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1)

HSP 1 Score: 55.1 bits (131), Expect = 4.7e-07
Identity = 33/82 (40.24%), Postives = 48/82 (58.54%), Query Frame = 1


Query: 4  DTCFLCLPTEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSR 63
          D   L  P EF  A+ L+N EV ++LEH+ +Q  + AED   ++S+VF K+L Y  RFSR
Sbjct: 16 DASQLIFPKEFETAETLLNSEVHMLLEHRKQQ-NESAEDE-QELSEVFMKTLNYTARFSR 75

Query: 64 YKNPDAVRQVREYPLNFNVFYF 86
          +KN + +  VR   L   +  F
Sbjct: 76 FKNRETIASVRSLLLQKKLHKF 95

[Close]

BLAST of Lsi03G002270 vs. Swiss-Prot
Match: RPB4_MOUSE (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=1 SV=2)

HSP 1 Score: 55.1 bits (131), Expect = 4.7e-07
Identity = 33/82 (40.24%), Postives = 48/82 (58.54%), Query Frame = 1


Query: 4  DTCFLCLPTEFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSR 63
          D   L  P EF  A+ L+N EV ++LEH+ +Q  + AED   ++S+VF K+L Y  RFSR
Sbjct: 16 DASQLIFPKEFETAETLLNSEVHMLLEHRKQQ-NESAEDE-QELSEVFMKTLNYTARFSR 75

Query: 64 YKNPDAVRQVREYPLNFNVFYF 86
          +KN + +  VR   L   +  F
Sbjct: 76 FKNRETIASVRSLLLQKKLHKF 95

[Close]

BLAST of Lsi03G002270 vs. TrEMBL
Match: I3SGD9_LOTJA (Uncharacterized protein OS=Lotus japonicus PE=2 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 3.8e-27
Identity = 62/67 (92.54%), Postives = 64/67 (95.52%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ ++DP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQSSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPLN 80
          VREYP N
Sbjct: 77 VREYPAN 83

[Close]

BLAST of Lsi03G002270 vs. TrEMBL
Match: V4LB78_EUTSA (Uncharacterized protein OS=Eutrema salsugineum GN=EUTSA_v10014976mg PE=4 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 3.8e-27
Identity = 63/66 (95.45%), Postives = 64/66 (96.97%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPL 79
          VREYPL
Sbjct: 77 VREYPL 82

[Close]

BLAST of Lsi03G002270 vs. TrEMBL
Match: A0A059ALU0_EUCGR (Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_I00318 PE=4 SV=1)

HSP 1 Score: 127.1 bits (318), Expect = 1.1e-26
Identity = 62/68 (91.18%), Postives = 64/68 (94.12%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ ++DP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPLNF 81
          VREYP  F
Sbjct: 77 VREYPAIF 84

[Close]

BLAST of Lsi03G002270 vs. TrEMBL
Match: A0A0D3E8F9_BRAOL (Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1)

HSP 1 Score: 126.3 bits (316), Expect = 1.9e-26
Identity = 62/67 (92.54%), Postives = 64/67 (95.52%), Query Frame = 1


Query: 13  EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
           EFLKAKCLMNCEVSLILEHKYEQLQ  +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 223 EFLKAKCLMNCEVSLILEHKYEQLQLVSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 282

Query: 73  VREYPLN 80
           VREYPL+
Sbjct: 283 VREYPLS 289

[Close]

BLAST of Lsi03G002270 vs. TrEMBL
Match: A0A0D3CE27_BRAOL (Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1)

HSP 1 Score: 125.6 bits (314), Expect = 3.2e-26
Identity = 62/69 (89.86%), Postives = 65/69 (94.20%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ +EDP NQVSQV EKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVIEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPLNFN 82
          VREY L+F+
Sbjct: 77 VREYHLSFH 85

[Close]

BLAST of Lsi03G002270 vs. TAIR10
Match: AT5G09920.1 (AT5G09920.1 RNA polymerase II, Rpb4, core protein)

HSP 1 Score: 120.2 bits (300), Expect = 6.8e-28
Identity = 59/63 (93.65%), Postives = 61/63 (96.83%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHK+EQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VRE 76
          VRE
Sbjct: 77 VRE 79

[Close]

BLAST of Lsi03G002270 vs. NCBI nr
Match: gi|567172260|ref|XP_006399476.1| (hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum])

HSP 1 Score: 128.6 bits (322), Expect = 5.4e-27
Identity = 63/66 (95.45%), Postives = 64/66 (96.97%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ +EDP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPL 79
          VREYPL
Sbjct: 77 VREYPL 82

[Close]

BLAST of Lsi03G002270 vs. NCBI nr
Match: gi|388502530|gb|AFK39331.1| (unknown [Lotus japonicus])

HSP 1 Score: 128.6 bits (322), Expect = 5.4e-27
Identity = 62/67 (92.54%), Postives = 64/67 (95.52%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ ++DP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQSSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPLN 80
          VREYP N
Sbjct: 77 VREYPAN 83

[Close]

BLAST of Lsi03G002270 vs. NCBI nr
Match: gi|449447482|ref|XP_004141497.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis sativus])

HSP 1 Score: 128.3 bits (321), Expect = 7.0e-27
Identity = 63/63 (100.00%), Postives = 63/63 (100.00%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VRE 76
          VRE
Sbjct: 77 VRE 79

[Close]

BLAST of Lsi03G002270 vs. NCBI nr
Match: gi|659119066|ref|XP_008459458.1| (PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis melo])

HSP 1 Score: 127.9 bits (320), Expect = 9.2e-27
Identity = 62/63 (98.41%), Postives = 63/63 (100.00%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQ+SQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VRE 76
          VRE
Sbjct: 77 VRE 79

[Close]

BLAST of Lsi03G002270 vs. NCBI nr
Match: gi|629088107|gb|KCW54360.1| (hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis])

HSP 1 Score: 127.1 bits (318), Expect = 1.6e-26
Identity = 62/68 (91.18%), Postives = 64/68 (94.12%), Query Frame = 1


Query: 13 EFLKAKCLMNCEVSLILEHKYEQLQQRAEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 72
          EFLKAKCLMNCEVSLILEHKYEQLQQ ++DP NQVSQVFEKSLQYVKRFSRYKNPDAVRQ
Sbjct: 17 EFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQYVKRFSRYKNPDAVRQ 76

Query: 73 VREYPLNF 81
          VREYP  F
Sbjct: 77 VREYPAIF 84

The following BLAST results are available for this feature:

BLAST of Lsi03G002270 vs. Swiss-Prot


Match Name	E-value	Identity	Description
NRPB4_ARATH	1.2e-26	93.65	DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana GN=NRPB4 PE=1 S...	[more]
RPB4_HUMAN	4.7e-07	40.24	DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens GN=POLR2D PE=1 SV=1	[more]
RPB4_MOUSE	4.7e-07	40.24	DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus GN=Polr2d PE=1 SV=2	[more]

BLAST of Lsi03G002270 vs. TrEMBL


Match Name	E-value	Identity	Description
I3SGD9_LOTJA	3.8e-27	92.54	Uncharacterized protein OS=Lotus japonicus PE=2 SV=1	[more]
V4LB78_EUTSA	3.8e-27	95.45	Uncharacterized protein OS=Eutrema salsugineum GN=EUTSA_v10014976mg PE=4 SV=1	[more]
A0A059ALU0_EUCGR	1.1e-26	91.18	Uncharacterized protein OS=Eucalyptus grandis GN=EUGRSUZ_I00318 PE=4 SV=1	[more]
A0A0D3E8F9_BRAOL	1.9e-26	92.54	Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1	[more]
A0A0D3CE27_BRAOL	3.2e-26	89.86	Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1	[more]

BLAST of Lsi03G002270 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G09920.1	6.8e-28	93.65	RNA polymerase II, Rpb4, core protein	[more]

BLAST of Lsi03G002270 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|567172260\|ref\|XP_006399476.1\|	5.4e-27	95.45	hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum]	[more]
gi\|388502530\|gb\|AFK39331.1\|	5.4e-27	92.54	unknown [Lotus japonicus]	[more]
gi\|449447482\|ref\|XP_004141497.1\|	7.0e-27	100.00	PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis sativus]	[more]
gi\|659119066\|ref\|XP_008459458.1\|	9.2e-27	98.41	PREDICTED: DNA-directed RNA polymerase II subunit 4-like [Cucumis melo]	[more]
gi\|629088107\|gb\|KCW54360.1\|	1.6e-26	91.18	hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Biological Process**
Term	Definition
GO:0044237	cellular metabolic process
GO:0006351	transcription, DNA-templated

Vocabulary: **Molecular Function**
Term	Definition
GO:0003824	catalytic activity
GO:0000166	nucleotide binding
GO:0003899	DNA-directed RNA polymerase activity

Vocabulary: **INTERPRO**
Term	Definition
IPR010997	HRDC-like_sf
IPR006590	RNA_pol_Rpb4/RPC9_core
IPR005574	RPB4/RPC9

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006144	purine nucleobase metabolic process
biological_process	GO:0044237	cellular metabolic process
biological_process	GO:0006352	DNA-templated transcription, initiation
biological_process	GO:0006367	transcription initiation from RNA polymerase II promoter
biological_process	GO:0034402	recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
biological_process	GO:0045948	positive regulation of translational initiation
biological_process	GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
biological_process	GO:0006206	pyrimidine nucleobase metabolic process
biological_process	GO:0031990	mRNA export from nucleus in response to heat stress
biological_process	GO:0006366	transcription from RNA polymerase II promoter
biological_process	GO:0000394	RNA splicing, via endonucleolytic cleavage and ligation
biological_process	GO:0006351	transcription, DNA-templated
cellular_component	GO:0005665	DNA-directed RNA polymerase II, core complex
cellular_component	GO:0005730	nucleolus
cellular_component	GO:0000932	cytoplasmic mRNA processing body
cellular_component	GO:0030880	RNA polymerase complex
molecular_function	GO:0003824	catalytic activity
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0003899	DNA-directed RNA polymerase activity
molecular_function	GO:0003697	single-stranded DNA binding
molecular_function	GO:0003727	single-stranded RNA binding
molecular_function	GO:0031369	translation initiation factor binding

Relationships

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


Feature Name	Unique Name	Type
Lsi03G002270.1	Lsi03G002270.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR005574	RNA polymerase II, Rpb4	PFAM	PF03874	RNA_pol_Rpb4	coord: 19..76 score: 1.
IPR006590	RNA polymerase II, Rpb4, core	SMART	SM00657	rpol4neu2	coord: 12..84 score: 2.
IPR010997	HRDC-like	unknown	SSF47819	HRDC-like	coord: 10..79 score: 3.14
None	No IPR available	PANTHER	PTHR21297	DNA-DIRECTED RNA POLYMERASE II	coord: 10..76 score: 2.3

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Lsi03G002270	Csa5G643990	Cucumber (Chinese Long) v2	culsiB353
Lsi03G002270	CSPI05G29990	Wild cucumber (PI 183967)	cpilsiB357
Lsi03G002270	Cucsa.238130	Cucumber (Gy14) v1	cgylsiB387
Lsi03G002270	CmaCh04G028590	Cucurbita maxima (Rimu)	cmalsiB668
Lsi03G002270	CmoCh04G029870	Cucurbita moschata (Rifu)	cmolsiB657
Lsi03G002270	Cla016457	Watermelon (97103) v1	lsiwmB278
Lsi03G002270	MELO3C022087	Melon (DHL92) v3.5.1	lsimeB233
Lsi03G002270	ClCG11G005330	Watermelon (Charleston Gray)	lsiwcgB226
Lsi03G002270	MELO3C022087.2	Melon (DHL92) v3.6.1	lsimedB243
Lsi03G002270	Cla97C11G212250	Watermelon (97103) v2	lsiwmbB222
Lsi03G002270	Bhi04G001820	Wax gourd	lsiwgoB322
Lsi03G002270	Bhi06G000082	Wax gourd	lsiwgoB310
Lsi03G002270	Cp4.1LG01g22050	Cucurbita pepo (Zucchini)	cpelsiB350
Lsi03G002270	CsGy5G029380	Cucumber (Gy14) v2	cgyblsiB325
Lsi03G002270	Carg05935	Silver-seed gourd	carlsiB019
Lsi03G002270	CsaV3_5G039120	Cucumber (Chinese Long) v3	cuclsiB378

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
Lsi03G002270	Watermelon (97103) v2	lsiwmbB238
Lsi03G002270	Wax gourd	lsiwgoB342
Lsi03G002270	Cucumber (Gy14) v1	cgylsiB464
Lsi03G002270	Cucurbita maxima (Rimu)	cmalsiB276
Lsi03G002270	Cucurbita maxima (Rimu)	cmalsiB656
Lsi03G002270	Cucurbita moschata (Rifu)	cmolsiB265
Lsi03G002270	Cucurbita moschata (Rifu)	cmolsiB363
Lsi03G002270	Cucurbita moschata (Rifu)	cmolsiB645
Lsi03G002270	Cucurbita pepo (Zucchini)	cpelsiB143
Lsi03G002270	Cucurbita pepo (Zucchini)	cpelsiB339
Lsi03G002270	Wild cucumber (PI 183967)	cpilsiB362
Lsi03G002270	Cucumber (Chinese Long) v2	culsiB359
Lsi03G002270	Melon (DHL92) v3.5.1	lsimeB232
Lsi03G002270	Melon (DHL92) v3.5.1	lsimeB238
Lsi03G002270	Watermelon (Charleston Gray)	lsiwcgB245
Lsi03G002270	Watermelon (97103) v1	lsiwmB258
Lsi03G002270	Melon (DHL92) v3.6.1	lsimedB249
Lsi03G002270	Silver-seed gourd	carlsiB017
Lsi03G002270	Silver-seed gourd	carlsiB236
Lsi03G002270	Cucumber (Chinese Long) v3	cuclsiB384