Lsi05G021360 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi05G021360
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	DNA-directed RNA polymerase subunit beta
Location	chr05 : 28185353 .. 28186306 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSthree_prime_UTR

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

ATGGGAGAAGAGCAAAAAGACCCTTTTAAGGGAGTGGACTGGAAAGCCGTGGGTGGGGATATGCAGAAAAATCCCAGCGCTACAAACATTATAAAGAAAAGGCGTCCAACAAAAATTAGGCAAATTCCAGATTATTATTTTCTTCCTAGAAGATCCCTTCCTTCTGCCATTGCATTCTATGGGGCCTGTATTGCAGGTGGAATTGGTGCTGGTATGCTGGTAGAGATCTGGATAAATGATAAAGTTAAAAGTAAGTTGTGACTATAGATTTAAGTTGTCATATTCAAAATCATGTCGATCAAACATAGTAAATCAGTTAATGTTTGATTTAACACCTTTAAACACAATTTTAATAACTATGAAATTTTATTTTAAAAGATTAAAAGCATGTTTAGTAGTGGTTTTGAATATGACAATAGCTATCTTTTTTTATATCTCTCTGTTTTTCTTTTTAAAGTACGTCTATGAGAGATAAAGACAGTGTGATTGAATCACTGATTATTAATTTTCTTTTTTGATGTGTTCTTACAGAGGATGGAGGTGTCATCTGGGAGTTTGACAAGTAGAGTACAAGAGAAGTATGAAGTTGTATTAATCAAGCAGAACAAGATCATCAAGTTGCTGGGTTTTGTTTTATCGTTAATCCTAGTTTTTTTGCACGCATAATTGTTTTTTCCCCCTGAAGTTATAACCTCCAATTGAGCTGTTGGTTGTTTCTCTAATTATAGATCAAGCACAACTAACATTGAATGCAATCATTTTTGGTATAAACCTTGCACAGATTGCTGCTTTGCTCTTCTAAAGCTGGGTTGTAATACTCTACTGAAACCAAACTTCCATTTGTAATACCCTGAACCTTGCACATGTGCTGGTTAATAATCGATTGTGGTACATCCTCTGATTTGTAATACCCTACTGAATTTAATACAGACGTTACTTTTTTGTTTGACAAGG

mRNA sequence

ATGGGAGAAGAGCAAAAAGACCCTTTTAAGGGAGTGGACTGGAAAGCCGTGGGTGGGGATATGCAGAAAAATCCCAGCGCTACAAACATTATAAAGAAAAGGCGTCCAACAAAAATTAGGCAAATTCCAGATTATTATTTTCTTCCTAGAAGATCCCTTCCTTCTGCCATTGCATTCTATGGGGCCTGTATTGCAGGTGGAATTGGTGCTGAGGATGGAGGTGTCATCTGGGAGTTTGACAAGTAGAGTACAAGAGAAGTATGAAGTTGTATTAATCAAGCAGAACAAGATCATCAAGTTGCTGGGTTTTGTTTTATCGTTAATCCTAGTTTTTTTGCACGCATAATTGTTTTTTCCCCCTGAAGTTATAACCTCCAATTGAGCTGTTGGTTGTTTCTCTAATTATAGATCAAGCACAACTAACATTGAATGCAATCATTTTTGGTATAAACCTTGCACAGATTGCTGCTTTGCTCTTCTAAAGCTGGGTTGTAATACTCTACTGAAACCAAACTTCCATTTGTAATACCCTGAACCTTGCACATGTGCTGGTTAATAATCGATTGTGGTACATCCTCTGATTTGTAATACCCTACTGAATTTAATACAGACGTTACTTTTTTGTTTGACAAGG

Coding sequence (CDS)

ATGGGAGAAGAGCAAAAAGACCCTTTTAAGGGAGTGGACTGGAAAGCCGTGGGTGGGGATATGCAGAAAAATCCCAGCGCTACAAACATTATAAAGAAAAGGCGTCCAACAAAAATTAGGCAAATTCCAGATTATTATTTTCTTCCTAGAAGATCCCTTCCTTCTGCCATTGCATTCTATGGGGCCTGTATTGCAGGTGGAATTGGTGCTGAGGATGGAGGTGTCATCTGGGAGTTTGACAAGTAG

Protein sequence

MGEEQKDPFKGVDWKAVGGDMQKNPSATNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFYGACIAGGIGAEDGGVIWEFDK

Homology

[Close]

BLAST of Lsi05G021360 vs. TrEMBL
Match: A0A0A0L8I7_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G119440 PE=4 SV=1)

HSP 1 Score: 148.7 bits (374), Expect = 3.1e-33
Identity = 73/93 (78.49%), Postives = 77/93 (82.80%), Query Frame = 1


Query: 2   GEEQKDPFKGVDWKAVGGDMQKNPSATNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFYG 61
           G EQKDP KGVDWKAVGGDMQK+PS+TNIIKKRRPTKIRQIPDYYFLPRRSLPS +AFYG
Sbjct: 11  GVEQKDPLKGVDWKAVGGDMQKDPSSTNIIKKRRPTKIRQIPDYYFLPRRSLPSVMAFYG 70

Query: 62  ACIAGGIGA-------------EDGGVIWEFDK 82
           ACIAGGIGA             +DGGVIWEFDK
Sbjct: 71  ACIAGGIGAGMLVEIWINDKIKKDGGVIWEFDK 103

[Close]

BLAST of Lsi05G021360 vs. TrEMBL
Match: B9SBE8_RICCO (Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0716680 PE=4 SV=1)

HSP 1 Score: 136.0 bits (341), Expect = 2.1e-29
Identity = 68/94 (72.34%), Postives = 75/94 (79.79%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSA--TNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDPFKGVDWKA+GG++QK+PSA   ++I+KR P KIRQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPFKGVDWKAIGGELQKDPSAGAKSVIRKRLPKKIRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          GACIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GACIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. TrEMBL
Match: A0A067JX58_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_14238 PE=4 SV=1)

HSP 1 Score: 134.8 bits (338), Expect = 4.7e-29
Identity = 67/94 (71.28%), Postives = 74/94 (78.72%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSATN--IIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDPFKGVDWKA+GG++QK+PSA+   +IKKR P K+RQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPFKGVDWKAIGGELQKDPSASAKPVIKKRLPKKVRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          G CIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GGCIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. TrEMBL
Match: A0A067KCR1_JATCU (Uncharacterized protein OS=Jatropha curcas GN=JCGZ_12070 PE=4 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 2.3e-28
Identity = 68/94 (72.34%), Postives = 72/94 (76.60%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSA--TNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDP KGVDWKA+G ++QK+PSA    IIKKR P KIRQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPLKGVDWKAIGSELQKDPSAGAKQIIKKRLPKKIRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          GACIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GACIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. TrEMBL
Match: B9GK55_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0001s11560g PE=4 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 3.3e-27
Identity = 64/94 (68.09%), Postives = 71/94 (75.53%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSATN--IIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDPFKGVDWKA+GG++QK+PSA    IIKKR P KIRQIPDYYFLPR  LP+ IAFY
Sbjct: 4  EEPKDPFKGVDWKAIGGELQKDPSAGTKPIIKKRLPKKIRQIPDYYFLPRLPLPTVIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          GACIAGG+GA             EDGG+IWEFDK
Sbjct: 64 GACIAGGVGAGMLLEMWINKKVKEDGGIIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. TAIR10
Match: AT5G16950.1 (AT5G16950.1 unknown protein)

HSP 1 Score: 66.6 bits (161), Expect = 7.9e-12
Identity = 38/97 (39.18%), Postives = 52/97 (53.61%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSATNI-----IKKRRPTKIRQIPDYYFLPRRSLPSAI 62
          E  KDP+KG +W     +  K P+ + +      +K+ P  +    + YFLPR+  P A+
Sbjct: 4  EGAKDPWKGEEW-GTENEKTKKPTTSGVKTVTRARKQIPRGLEDKYEAYFLPRKPWPRAL 63

Query: 63 AFYGACIAGGIGA-------------EDGGVIWEFDK 82
          A+YG+ I GGIGA             EDGGVIWEFDK
Sbjct: 64 AYYGSFILGGIGAGMVIEAWINKKVKEDGGVIWEFDK 99

[Close]

BLAST of Lsi05G021360 vs. NCBI nr
Match: gi|449432034|ref|XP_004133805.1| (PREDICTED: uncharacterized protein LOC101207877 [Cucumis sativus])

HSP 1 Score: 148.7 bits (374), Expect = 4.5e-33
Identity = 73/93 (78.49%), Postives = 77/93 (82.80%), Query Frame = 1


Query: 2   GEEQKDPFKGVDWKAVGGDMQKNPSATNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFYG 61
           G EQKDP KGVDWKAVGGDMQK+PS+TNIIKKRRPTKIRQIPDYYFLPRRSLPS +AFYG
Sbjct: 11  GVEQKDPLKGVDWKAVGGDMQKDPSSTNIIKKRRPTKIRQIPDYYFLPRRSLPSVMAFYG 70

Query: 62  ACIAGGIGA-------------EDGGVIWEFDK 82
           ACIAGGIGA             +DGGVIWEFDK
Sbjct: 71  ACIAGGIGAGMLVEIWINDKIKKDGGVIWEFDK 103

[Close]

BLAST of Lsi05G021360 vs. NCBI nr
Match: gi|659074925|ref|XP_008437869.1| (PREDICTED: uncharacterized protein LOC103483172 [Cucumis melo])

HSP 1 Score: 146.7 bits (369), Expect = 1.7e-32
Identity = 72/93 (77.42%), Postives = 76/93 (81.72%), Query Frame = 1


Query: 2   GEEQKDPFKGVDWKAVGGDMQKNPSATNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFYG 61
           G EQKDPFKGVDWKAVGGDMQK+PS+TNIIKKRRPTKIRQIPDYYFLPRR LP  +AFYG
Sbjct: 11  GVEQKDPFKGVDWKAVGGDMQKDPSSTNIIKKRRPTKIRQIPDYYFLPRRPLPYVMAFYG 70

Query: 62  ACIAGGIGA-------------EDGGVIWEFDK 82
           ACIAGGIGA             +DGGVIWEFDK
Sbjct: 71  ACIAGGIGAGMLVEMWINDKIKKDGGVIWEFDK 103

[Close]

BLAST of Lsi05G021360 vs. NCBI nr
Match: gi|255564645|ref|XP_002523317.1| (PREDICTED: uncharacterized protein LOC8263493 [Ricinus communis])

HSP 1 Score: 136.0 bits (341), Expect = 3.0e-29
Identity = 68/94 (72.34%), Postives = 75/94 (79.79%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSA--TNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDPFKGVDWKA+GG++QK+PSA   ++I+KR P KIRQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPFKGVDWKAIGGELQKDPSAGAKSVIRKRLPKKIRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          GACIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GACIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. NCBI nr
Match: gi|802694456|ref|XP_012083179.1| (PREDICTED: uncharacterized protein LOC105642827 [Jatropha curcas])

HSP 1 Score: 134.8 bits (338), Expect = 6.7e-29
Identity = 67/94 (71.28%), Postives = 74/94 (78.72%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSATN--IIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDPFKGVDWKA+GG++QK+PSA+   +IKKR P K+RQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPFKGVDWKAIGGELQKDPSASAKPVIKKRLPKKVRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          G CIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GGCIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

[Close]

BLAST of Lsi05G021360 vs. NCBI nr
Match: gi|802635256|ref|XP_012078200.1| (PREDICTED: uncharacterized protein LOC105638912 [Jatropha curcas])

HSP 1 Score: 132.5 bits (332), Expect = 3.3e-28
Identity = 68/94 (72.34%), Postives = 72/94 (76.60%), Query Frame = 1


Query: 3  EEQKDPFKGVDWKAVGGDMQKNPSA--TNIIKKRRPTKIRQIPDYYFLPRRSLPSAIAFY 62
          EE KDP KGVDWKA+G ++QK+PSA    IIKKR P KIRQIPDYYFLPRRSLPSAIAFY
Sbjct: 4  EEPKDPLKGVDWKAIGSELQKDPSAGAKQIIKKRLPKKIRQIPDYYFLPRRSLPSAIAFY 63

Query: 63 GACIAGGIGA-------------EDGGVIWEFDK 82
          GACIAGGIGA             EDGGVIWEFDK
Sbjct: 64 GACIAGGIGAGMLLEIWINKKVKEDGGVIWEFDK 97

The following BLAST results are available for this feature:

BLAST of Lsi05G021360 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Lsi05G021360 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L8I7_CUCSA	3.1e-33	78.49	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G119440 PE=4 SV=1	[more]
B9SBE8_RICCO	2.1e-29	72.34	Putative uncharacterized protein OS=Ricinus communis GN=RCOM_0716680 PE=4 SV=1	[more]
A0A067JX58_JATCU	4.7e-29	71.28	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_14238 PE=4 SV=1	[more]
A0A067KCR1_JATCU	2.3e-28	72.34	Uncharacterized protein OS=Jatropha curcas GN=JCGZ_12070 PE=4 SV=1	[more]
B9GK55_POPTR	3.3e-27	68.09	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0001s11560g PE=4 SV=1	[more]

BLAST of Lsi05G021360 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G16950.1	7.9e-12	39.18	unknown protein	[more]

BLAST of Lsi05G021360 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449432034\|ref\|XP_004133805.1\|	4.5e-33	78.49	PREDICTED: uncharacterized protein LOC101207877 [Cucumis sativus]	[more]
gi\|659074925\|ref\|XP_008437869.1\|	1.7e-32	77.42	PREDICTED: uncharacterized protein LOC103483172 [Cucumis melo]	[more]
gi\|255564645\|ref\|XP_002523317.1\|	3.0e-29	72.34	PREDICTED: uncharacterized protein LOC8263493 [Ricinus communis]	[more]
gi\|802694456\|ref\|XP_012083179.1\|	6.7e-29	71.28	PREDICTED: uncharacterized protein LOC105642827 [Jatropha curcas]	[more]
gi\|802635256\|ref\|XP_012078200.1\|	3.3e-28	72.34	PREDICTED: uncharacterized protein LOC105638912 [Jatropha curcas]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Lsi05G021360.1	Lsi05G021360.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR36797	FAMILY NOT NAMED	coord: 1..81 score: 7.9
None	No IPR available	PANTHER	PTHR36797:SF1	SUBFAMILY NOT NAMED	coord: 1..81 score: 7.9

Synteny

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


Gene	Orthologue	Organism	Block
Lsi05G021360	Csa3G119440	Cucumber (Chinese Long) v2	culsiB209
Lsi05G021360	CSPI03G07800	Wild cucumber (PI 183967)	cpilsiB207
Lsi05G021360	Cucsa.259360	Cucumber (Gy14) v1	cgylsiB415
Lsi05G021360	CmoCh06G010290	Cucurbita moschata (Rifu)	cmolsiB758
Lsi05G021360	Cla021142	Watermelon (97103) v1	lsiwmB365
Lsi05G021360	MELO3C006010	Melon (DHL92) v3.5.1	lsimeB378
Lsi05G021360	ClCG05G000700	Watermelon (Charleston Gray)	lsiwcgB335
Lsi05G021360	MELO3C006010.2	Melon (DHL92) v3.6.1	lsimedB396
Lsi05G021360	Cla97C05G080810	Watermelon (97103) v2	lsiwmbB333
Lsi05G021360	Cp4.1LG08g00710	Cucurbita pepo (Zucchini)	cpelsiB714
Lsi05G021360	CsGy3G007950	Cucumber (Gy14) v2	cgyblsiB196
Lsi05G021360	Carg20905	Silver-seed gourd	carlsiB907
Lsi05G021360	CsaV3_3G007920	Cucumber (Chinese Long) v3	cuclsiB228

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Lsi05G021360	Cucumber (Chinese Long) v3	cuclsiB402
Lsi05G021360	Watermelon (97103) v2	lsiwmbB319
Lsi05G021360	Watermelon (97103) v2	lsiwmbB332
Lsi05G021360	Wax gourd	lsiwgoB419
Lsi05G021360	Wax gourd	lsiwgoB433
Lsi05G021360	Wax gourd	lsiwgoB439
Lsi05G021360	Bottle gourd (USVL1VR-Ls)	lsilsiB014
Lsi05G021360	Bottle gourd (USVL1VR-Ls)	lsilsiB158
Lsi05G021360	Cucumber (Gy14) v1	cgylsiB349
Lsi05G021360	Cucurbita maxima (Rimu)	cmalsiB245
Lsi05G021360	Cucurbita maxima (Rimu)	cmalsiB760
Lsi05G021360	Cucurbita maxima (Rimu)	cmalsiB770
Lsi05G021360	Cucurbita maxima (Rimu)	cmalsiB838
Lsi05G021360	Cucurbita moschata (Rifu)	cmolsiB233
Lsi05G021360	Cucurbita moschata (Rifu)	cmolsiB557
Lsi05G021360	Cucurbita moschata (Rifu)	cmolsiB822
Lsi05G021360	Cucurbita pepo (Zucchini)	cpelsiB506
Lsi05G021360	Cucurbita pepo (Zucchini)	cpelsiB626
Lsi05G021360	Wild cucumber (PI 183967)	cpilsiB382
Lsi05G021360	Cucumber (Chinese Long) v2	culsiB378
Lsi05G021360	Melon (DHL92) v3.5.1	lsimeB336
Lsi05G021360	Melon (DHL92) v3.5.1	lsimeB375
Lsi05G021360	Watermelon (Charleston Gray)	lsiwcgB325
Lsi05G021360	Watermelon (Charleston Gray)	lsiwcgB334
Lsi05G021360	Watermelon (97103) v1	lsiwmB364
Lsi05G021360	Watermelon (97103) v1	lsiwmB375
Lsi05G021360	Cucumber (Gy14) v2	cgyblsiB345
Lsi05G021360	Melon (DHL92) v3.6.1	lsimedB353
Lsi05G021360	Silver-seed gourd	carlsiB110