Lsi02G014510 (gene) Bottle gourd (USVL1VR-Ls)

Overview
NameLsi02G014510
Typegene
OrganismLagenaria siceraria (Bottle gourd (USVL1VR-Ls))
DescriptionDNA-directed RNA polymerase subunit
Locationchr02 : 20196548 .. 20197041 (+)
Genome Viewer
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

CAATGGAACATGGATCCTTCACAGATGAGACCAAATCAACATTTTCTATGGCTGATGAAGATCATACACTTGCAAATGCTCTCAGATACACTTTGAATCAAGATCCAAGAGTGACATTTTGTGGATACAGCATTCCTCATCCTTCAGATAATCGAGTTAATATTCGAATCCAGACAATAGGTAATATTTTGAAA

Coding sequence (CDS)

ATGGAACATGGATCCTTCACAGATGAGACCAAATCAACATTTTCTATGGCTGATGAAGATCATACACTTGCAAATGCTCTCAGATACACTTTGAATCAAGATCCAAGAGTGACATTTTGTGGATACAGCATTCCTCATCCTTCAGATAATCGAGTTAATATTCGAATCCAGACAATAGGTAATATTTTGAAA

Protein sequence

MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIGNILK
Homology
[Close]
BLAST of Lsi02G014510 vs. Swiss-Prot
Match: RPAC2_YEAST (DNA-directed RNA polymerases I and III subunit RPAC2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPC19 PE=1 SV=1)

HSP 1 Score: 77.0 bits (188), Expect = 8.2e-14
Identity = 33/53 (62.26%), Postives = 42/53 (79.25%), Query Frame = 1 

Query: 8   DETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 61
           D T ++F + +EDHTL NALRY + ++P V FCGYSIPHPS+N +NIRIQT G
Sbjct: 57  DGTSASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHPSENLLNIRIQTYG 109

[Close]
BLAST of Lsi02G014510 vs. Swiss-Prot
Match: RPC19_DICDI (DNA-directed RNA polymerases I and III subunit rpc19 OS=Dictyostelium discoideum GN=rpc19 PE=3 SV=1)

HSP 1 Score: 76.6 bits (187), Expect = 1.1e-13
Identity = 34/51 (66.67%), Postives = 40/51 (78.43%), Query Frame = 1 

Query: 12 STFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIGNI 63
          +TF   DEDHTL NAL Y L ++P+V F GYSIPHPSDNR+N+RIQT  NI
Sbjct: 36 ATFIFTDEDHTLGNALHYVLMKNPKVDFSGYSIPHPSDNRMNLRIQTKSNI 86

[Close]
BLAST of Lsi02G014510 vs. Swiss-Prot
Match: RPAC2_SCHPO (DNA-directed RNA polymerases I and III subunit RPAC2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpc19 PE=2 SV=1)

HSP 1 Score: 71.2 bits (173), Expect = 4.5e-12
Identity = 31/55 (56.36%), Postives = 39/55 (70.91%), Query Frame = 1 

Query: 4  GSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQT 59
          G   D T  TF +  EDHTL N+LRY + ++P V FCGYSIPHPS+ ++N RIQT
Sbjct: 27 GHSADLTSVTFQIQKEDHTLGNSLRYVIMKNPEVEFCGYSIPHPSEAKMNFRIQT 81

[Close]
BLAST of Lsi02G014510 vs. Swiss-Prot
Match: RPAC2_HUMAN (DNA-directed RNA polymerases I and III subunit RPAC2 OS=Homo sapiens GN=POLR1D PE=1 SV=1)

HSP 1 Score: 67.8 bits (164), Expect = 5.0e-11
Identity = 29/62 (46.77%), Postives = 43/62 (69.35%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          M   + TD    TF + +EDHTL N+LRY + ++P V FCGY+  HPS++++N+RIQT G
Sbjct: 29 MVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIMKNPEVEFCGYTTTHPSESKINLRIQTRG 88

Query: 61 NI 63
           +
Sbjct: 89 TL 90

[Close]
BLAST of Lsi02G014510 vs. Swiss-Prot
Match: RPAC2_BOVIN (DNA-directed RNA polymerases I and III subunit RPAC2 OS=Bos taurus GN=POLR1D PE=2 SV=1)

HSP 1 Score: 67.4 bits (163), Expect = 6.5e-11
Identity = 29/60 (48.33%), Postives = 42/60 (70.00%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          M   + TD    TF + +EDHTL N+LRY + ++P V FCGY+  HPS++++N+RIQT G
Sbjct: 29 MVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIMKNPEVEFCGYTTTHPSESKINLRIQTRG 88

[Close]
BLAST of Lsi02G014510 vs. TrEMBL
Match: A0A0A0LUT5_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G095010 PE=4 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 1.1e-25
Identity = 56/61 (91.80%), Postives = 59/61 (96.72%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGSFTDETKSTFS+ADEDHTLAN LRYTLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSFTDETKSTFSVADEDHTLANTLRYTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. TrEMBL
Match: A0A0A0LV21_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_1G527910 PE=4 SV=1)

HSP 1 Score: 122.9 bits (307), Expect = 1.5e-25
Identity = 57/61 (93.44%), Postives = 59/61 (96.72%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGSFTDETKSTFSMADEDHTLANALR TLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSFTDETKSTFSMADEDHTLANALRCTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. TrEMBL
Match: I3S968_LOTJA (Uncharacterized protein OS=Lotus japonicus PE=2 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 5.2e-23
Identity = 50/60 (83.33%), Postives = 56/60 (93.33%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGS +DE++STFS+ DEDHT ANA+RYTLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSHSDESRSTFSLTDEDHTFANAIRYTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

[Close]
BLAST of Lsi02G014510 vs. TrEMBL
Match: C6T2I2_SOYBN (Putative uncharacterized protein OS=Glycine max PE=2 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 6.7e-23
Identity = 49/61 (80.33%), Postives = 58/61 (95.08%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGS+TD++KSTFS+ DEDHT ANA+R+TLNQDPRV+FCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSYTDQSKSTFSLVDEDHTFANAVRFTLNQDPRVSFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. TrEMBL
Match: A0A0B2PXJ1_GLYSO (DNA-directed RNA polymerases I and III subunit RPAC2 OS=Glycine soja GN=glysoja_016099 PE=4 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 6.7e-23
Identity = 49/61 (80.33%), Postives = 58/61 (95.08%), Query Frame = 1 

Query: 1   MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
           MEHGS+TD++KSTFS+ DEDHT ANA+R+TLNQDPRV+FCGYSIPHPSDNRVNIR+QT G
Sbjct: 259 MEHGSYTDQSKSTFSLVDEDHTFANAVRFTLNQDPRVSFCGYSIPHPSDNRVNIRVQTTG 318

Query: 61  N 62
           +
Sbjct: 319 D 319

[Close]
BLAST of Lsi02G014510 vs. NCBI nr
Match: gi|659115158|ref|XP_008457416.1| (PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis melo])

HSP 1 Score: 126.3 bits (316), Expect = 1.9e-26
Identity = 58/61 (95.08%), Postives = 60/61 (98.36%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. NCBI nr
Match: gi|778659017|ref|XP_004147276.2| (PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis sativus])

HSP 1 Score: 123.2 bits (308), Expect = 1.6e-25
Identity = 56/61 (91.80%), Postives = 59/61 (96.72%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGSFTDETKSTFS+ADEDHTLAN LRYTLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSFTDETKSTFSVADEDHTLANTLRYTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. NCBI nr
Match: gi|449455052|ref|XP_004145267.1| (PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis sativus])

HSP 1 Score: 122.9 bits (307), Expect = 2.1e-25
Identity = 57/61 (93.44%), Postives = 59/61 (96.72%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGSFTDETKSTFSMADEDHTLANALR TLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSFTDETKSTFSMADEDHTLANALRCTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

Query: 61 N 62
          +
Sbjct: 61 D 61

[Close]
BLAST of Lsi02G014510 vs. NCBI nr
Match: gi|388497488|gb|AFK36810.1| (unknown [Lotus japonicus])

HSP 1 Score: 114.4 bits (285), Expect = 7.4e-23
Identity = 50/60 (83.33%), Postives = 56/60 (93.33%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGS +DE++STFS+ DEDHT ANA+RYTLNQDPRVTFCGYSIPHPSDNRVNIR+QT G
Sbjct: 1  MEHGSHSDESRSTFSLTDEDHTFANAIRYTLNQDPRVTFCGYSIPHPSDNRVNIRVQTTG 60

[Close]
BLAST of Lsi02G014510 vs. NCBI nr
Match: gi|947051972|gb|KRH01501.1| (hypothetical protein GLYMA_18G281100 [Glycine max])

HSP 1 Score: 114.0 bits (284), Expect = 9.7e-23
Identity = 49/61 (80.33%), Postives = 58/61 (95.08%), Query Frame = 1 

Query: 1  MEHGSFTDETKSTFSMADEDHTLANALRYTLNQDPRVTFCGYSIPHPSDNRVNIRIQTIG 60
          MEHGS+TD++KSTFS+ DEDHT ANA+R+TLNQDPRV+FCGYSIPHPSDNRVNIR+QT G
Sbjct: 29 MEHGSYTDQSKSTFSLVDEDHTFANAVRFTLNQDPRVSFCGYSIPHPSDNRVNIRVQTTG 88

Query: 61 N 62
          +
Sbjct: 89 D 89

The following BLAST results are available for this feature:
BLAST of Lsi02G014510 vs. Swiss-Prot
Match NameE-valueIdentityDescription
RPAC2_YEAST8.2e-1462.26DNA-directed RNA polymerases I and III subunit RPAC2 OS=Saccharomyces cerevisiae... [more]
RPC19_DICDI1.1e-1366.67DNA-directed RNA polymerases I and III subunit rpc19 OS=Dictyostelium discoideum... [more]
RPAC2_SCHPO4.5e-1256.36DNA-directed RNA polymerases I and III subunit RPAC2 OS=Schizosaccharomyces pomb... [more]
RPAC2_HUMAN5.0e-1146.77DNA-directed RNA polymerases I and III subunit RPAC2 OS=Homo sapiens GN=POLR1D P... [more]
RPAC2_BOVIN6.5e-1148.33DNA-directed RNA polymerases I and III subunit RPAC2 OS=Bos taurus GN=POLR1D PE=... [more]
BLAST of Lsi02G014510 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A0A0LUT5_CUCSA1.1e-2591.80Uncharacterized protein OS=Cucumis sativus GN=Csa_1G095010 PE=4 SV=1[more]
A0A0A0LV21_CUCSA1.5e-2593.44Uncharacterized protein OS=Cucumis sativus GN=Csa_1G527910 PE=4 SV=1[more]
I3S968_LOTJA5.2e-2383.33Uncharacterized protein OS=Lotus japonicus PE=2 SV=1[more]
C6T2I2_SOYBN6.7e-2380.33Putative uncharacterized protein OS=Glycine max PE=2 SV=1[more]
A0A0B2PXJ1_GLYSO6.7e-2380.33DNA-directed RNA polymerases I and III subunit RPAC2 OS=Glycine soja GN=glysoja_... [more]
BLAST of Lsi02G014510 vs. TAIR10
Match NameE-valueIdentityDescription
BLAST of Lsi02G014510 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|659115158|ref|XP_008457416.1|1.9e-2695.08PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis melo][more]
gi|778659017|ref|XP_004147276.2|1.6e-2591.80PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis sativus... [more]
gi|449455052|ref|XP_004145267.1|2.1e-2593.44PREDICTED: DNA-directed RNA polymerases I and III subunit RPAC2 [Cucumis sativus... [more]
gi|388497488|gb|AFK36810.1|7.4e-2383.33unknown [Lotus japonicus][more]
gi|947051972|gb|KRH01501.1|9.7e-2380.33hypothetical protein GLYMA_18G281100 [Glycine max][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0046983protein dimerization activity
GO:0003899DNA-directed RNA polymerase activity
GO:0003677DNA binding
Vocabulary: Biological Process
TermDefinition
GO:0006351transcription, DNA-templated
Vocabulary: INTERPRO
TermDefinition
IPR009025RBP11-like_dimer
IPR008193RNA_pol_Rpb11_13-16kDa_CS
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006383 transcription from RNA polymerase III promoter
biological_process GO:0006360 transcription from RNA polymerase I promoter
biological_process GO:0006144 purine nucleobase metabolic process
biological_process GO:0006206 pyrimidine nucleobase metabolic process
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0005736 DNA-directed RNA polymerase I complex
cellular_component GO:0005666 DNA-directed RNA polymerase III complex
cellular_component GO:0005730 nucleolus
molecular_function GO:0003677 DNA binding
molecular_function GO:0046983 protein dimerization activity
molecular_function GO:0001054 RNA polymerase I activity
molecular_function GO:0001056 RNA polymerase III activity
molecular_function GO:0003899 DNA-directed RNA polymerase activity
Relationships

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

Feature NameUnique NameType
Lsi02G014510.1Lsi02G014510.1mRNA


InterPro
Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR008193DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved sitePROSITEPS01154RNA_POL_L_13KDcoord: 16..47
scor
IPR009025DNA-directed RNA polymerase, RBP11-like dimerisation domainunknownSSF55257RBP11-like subunits of RNA polymerasecoord: 8..61
score: 1.11
NoneNo IPR availableGENE3DG3DSA:3.30.1360.10coord: 8..61
score: 2.4
NoneNo IPR availablePANTHERPTHR13946DNA-DIRECTED RNA POLYMERASE I,II,IIIcoord: 1..62
score: 9.0
NoneNo IPR availablePANTHERPTHR13946:SF28DNA-DIRECTED RNA POLYMERASES I AND III SUBUNIT RPAC2coord: 1..62
score: 9.0
NoneNo IPR availablePFAMPF13656RNA_pol_L_2coord: 12..58
score: 7.0