Lsi05G013420 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi05G013420
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	B-block-binding subunit of tfiiic protein, putative
Location	chr05 : 21288464 .. 21289664 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGAAGGTCCAACTGGAGTGCTTCTCTTTTATGCACTTTATGAAATGATTGGAATTTCAATCACACAATGCATGATTCTGAGAATAATGTTCTGTTAATTACTTATTAAACTGTTAATCTAACGCATTGCGGTATTTTTAAAATAATGTGCTGTTTTATTGTTAACTTTTCATCCTTCCATGCTAATGTATTTTAGTAGAATGGCGATTGTTTCCTTAATAGGTTATCAATATGTGGTAATGTTTTTCCATCTTTTCTCTGTATTTTTTTGTTAGGTTGACATTATACAACGGATGAACGTCTTGAACCCCCAGGTAATCTAAAATTTCGAACATATACATACCTACAAAGTTCCATTTTGTCTGTGCTAGGTTAAGGTCTCATAATAAGTTTCCACAATTCAGATTTGCTTGAAGGTGTGATTATTTTTTATTTTTTTTCAAACAAGAGAACTTTTCACTGAAAAGATAAAAAGAGAGACTAATGGGAATGTGTAAGCTGAAAATTTTATTTTGCTGATTCTGTGCCAAGGAGATCTAATGGGAGGTGCTAGAAATGGGAGAAAGCCAAATACAACAATCTGAACTTATGATTGTGATAAAAACACATCCGAATTCTCTTACCAAACAAAACAACTAAGGGTCGTTTTTGTAACTATACAATAGACACCACACCATCAATTTAAATTGAAAGATCTTTTTGTAATCTTTCTTTTGGGAGAGGGGATGCCTTATTCCCTTGTTCCTTAGGTTGTTTGGTTGGGCTCTGCGTTTTGAATGACATTCTCTTGTTTTCTCACTTATATATACATATATATAAATGCCTGTGTAAGTTGATCATTTTTCTAAATATATTATTGTGGGAAGTATTTATTGGCACCATCTCTCCTTTCAGAGTTGTAAGAAGCTGCTAGAGTTGATGATGTTAGATGCTCACATCATAGTGAGGAAAATGTATCAAAGTAAGTTCAGTGGGCCCCCTGGTATTCTAGGGACTCTACTCAGCAGGAGCTACAGAGAGTCGAAGTTTGTTTGCCGTGATCACTACTTTGCAAATCCTATGAGTACATCATTGCTGTAGGTCGCCTCCCATGTTCTGCGTGCATGCTTATTCCTCAGGTAGCTTAACCAATTCATGGGAACAGAAAAAGCTGGTTCATGGAATCTCACGATGGATGCGAACTGAGACGCCATTACGATGA

mRNA sequence

ATGAAGGTTGACATTATACAACGGATGAACGTCTTGAACCCCCAGAGTTGTAAGAAGCTGCTAGAGTTGATGATGTTAGATGCTCACATCATAGTGAGGAAAATGTATCAAAGTAAGTTCAGTGGGCCCCCTGGTATTCTAGGGACTCTACTCAGCAGGAGCTACAGAGAGTCGAAGTTTGTTTGCCGTGATCACTACTTTGCAAATCCTATGAGTACATCATTGCTGTCGCCTCCCATGTTCTGCGTGCATGCTTATTCCTCAGGTAGCTTAACCAATTCATGGGAACAGAAAAAGCTGGTTCATGGAATCTCACGATGGATGCGAACTGAGACGCCATTACGATGA

Coding sequence (CDS)

ATGAAGGTTGACATTATACAACGGATGAACGTCTTGAACCCCCAGAGTTGTAAGAAGCTGCTAGAGTTGATGATGTTAGATGCTCACATCATAGTGAGGAAAATGTATCAAAGTAAGTTCAGTGGGCCCCCTGGTATTCTAGGGACTCTACTCAGCAGGAGCTACAGAGAGTCGAAGTTTGTTTGCCGTGATCACTACTTTGCAAATCCTATGAGTACATCATTGCTGTCGCCTCCCATGTTCTGCGTGCATGCTTATTCCTCAGGTAGCTTAACCAATTCATGGGAACAGAAAAAGCTGGTTCATGGAATCTCACGATGGATGCGAACTGAGACGCCATTACGATGA

Protein sequence

MKVDIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCRDHYFANPMSTSLLSPPMFCVHAYSSGSLTNSWEQKKLVHGISRWMRTETPLR

Homology

[Close]

BLAST of Lsi05G013420 vs. TrEMBL
Match: A0A0A0LAZ9_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G174540 PE=4 SV=1)

HSP 1 Score: 136.3 bits (342), Expect = 2.3e-29
Identity = 65/76 (85.53%), Postives = 71/76 (93.42%), Query Frame = 1


Query: 1    MKVDIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKF 60
            ++VDIIQRMNVL PQSCKKLLELM+LD+HI VRKMYQSKF GPPGILGTL+ RS +ESKF
Sbjct: 1772 LEVDIIQRMNVLTPQSCKKLLELMVLDSHITVRKMYQSKFGGPPGILGTLVGRSSKESKF 1831

Query: 61   VCRDHYFANPMSTSLL 77
            VCRDHYFANPMSTSLL
Sbjct: 1832 VCRDHYFANPMSTSLL 1847

[Close]

BLAST of Lsi05G013420 vs. TrEMBL
Match: A0A067FFX0_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1)

HSP 1 Score: 105.9 bits (263), Expect = 3.3e-20
Identity = 47/73 (64.38%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II++ +++NPQSCKKLLELM+LD H+IVRKM+Q++ SGPP ILGT    S+R SK V R
Sbjct: 1541 EIIRQTDIINPQSCKKLLELMILDGHLIVRKMHQTRHSGPPAILGTFFGSSFRNSKMVYR 1600

Query: 64   DHYFANPMSTSLL 77
            +H+FANPMSTS+L
Sbjct: 1601 EHFFANPMSTSIL 1613

[Close]

BLAST of Lsi05G013420 vs. TrEMBL
Match: A0A067FCB0_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1)

HSP 1 Score: 105.9 bits (263), Expect = 3.3e-20
Identity = 47/73 (64.38%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II++ +++NPQSCKKLLELM+LD H+IVRKM+Q++ SGPP ILGT    S+R SK V R
Sbjct: 1490 EIIRQTDIINPQSCKKLLELMILDGHLIVRKMHQTRHSGPPAILGTFFGSSFRNSKMVYR 1549

Query: 64   DHYFANPMSTSLL 77
            +H+FANPMSTS+L
Sbjct: 1550 EHFFANPMSTSIL 1562

[Close]

BLAST of Lsi05G013420 vs. TrEMBL
Match: A0A067FPC5_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1)

HSP 1 Score: 105.9 bits (263), Expect = 3.3e-20
Identity = 47/73 (64.38%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II++ +++NPQSCKKLLELM+LD H+IVRKM+Q++ SGPP ILGT    S+R SK V R
Sbjct: 1542 EIIRQTDIINPQSCKKLLELMILDGHLIVRKMHQTRHSGPPAILGTFFGSSFRNSKMVYR 1601

Query: 64   DHYFANPMSTSLL 77
            +H+FANPMSTS+L
Sbjct: 1602 EHFFANPMSTSIL 1614

[Close]

BLAST of Lsi05G013420 vs. TrEMBL
Match: V4RY16_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10024687mg PE=4 SV=1)

HSP 1 Score: 101.3 bits (251), Expect = 8.1e-19
Identity = 45/73 (61.64%), Postives = 60/73 (82.19%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II++ +++NPQSCK LLELM+LD H+IVRKM+Q++ SGPP ILGT    S+  SK V R
Sbjct: 1777 EIIRQTDIINPQSCKNLLELMILDGHLIVRKMHQTRHSGPPAILGTFFGSSFGNSKMVYR 1836

Query: 64   DHYFANPMSTSLL 77
            +H+FANPMSTS+L
Sbjct: 1837 EHFFANPMSTSIL 1849

[Close]

BLAST of Lsi05G013420 vs. TAIR10
Match: AT1G58766.1 (AT1G58766.1 BEST Arabidopsis thaliana protein match is: B-block binding subunit of TFIIIC (TAIR:AT1G59453.1))

HSP 1 Score: 81.3 bits (199), Expect = 4.4e-16
Identity = 37/66 (56.06%), Postives = 52/66 (78.79%), Query Frame = 1


Query: 4   DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
           +II +M+VLNPQSC+KLLELM LD ++ VR+M Q+KFSGPP +L  LL   +R+++ + R
Sbjct: 593 EIINQMDVLNPQSCRKLLELMTLDGYMKVREMVQTKFSGPPSLLTGLLFTGHRKTELISR 652

Query: 64  DHYFAN 70
            H+FAN
Sbjct: 653 KHFFAN 658

[Close]

BLAST of Lsi05G013420 vs. TAIR10
Match: AT1G59453.1 (AT1G59453.1 B-block binding subunit of TFIIIC)

HSP 1 Score: 81.3 bits (199), Expect = 4.4e-16
Identity = 37/66 (56.06%), Postives = 52/66 (78.79%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II +M+VLNPQSC+KLLELM LD ++ VR+M Q+KFSGPP +L  LL   +R+++ + R
Sbjct: 1657 EIINQMDVLNPQSCRKLLELMTLDGYMKVREMVQTKFSGPPSLLTGLLFTGHRKTELISR 1716

Query: 64   DHYFAN 70
             H+FAN
Sbjct: 1717 KHFFAN 1722

[Close]

BLAST of Lsi05G013420 vs. TAIR10
Match: AT1G59077.1 (AT1G59077.1 BEST Arabidopsis thaliana protein match is: B-block binding subunit of TFIIIC (TAIR:AT1G59453.1))

HSP 1 Score: 81.3 bits (199), Expect = 4.4e-16
Identity = 37/66 (56.06%), Postives = 52/66 (78.79%), Query Frame = 1


Query: 4   DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
           +II +M+VLNPQSC+KLLELM LD ++ VR+M Q+KFSGPP +L  LL   +R+++ + R
Sbjct: 593 EIINQMDVLNPQSCRKLLELMTLDGYMKVREMVQTKFSGPPSLLTGLLFTGHRKTELISR 652

Query: 64  DHYFAN 70
            H+FAN
Sbjct: 653 KHFFAN 658

[Close]

BLAST of Lsi05G013420 vs. TAIR10
Match: AT1G17450.2 (AT1G17450.2 B-block binding subunit of TFIIIC)

HSP 1 Score: 75.5 bits (184), Expect = 2.4e-14
Identity = 35/66 (53.03%), Postives = 49/66 (74.24%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II  M++LNPQSC+KLLELM LD ++ VR+M Q+KF+GPP +L  L+S   R+ + + R
Sbjct: 1772 EIINLMDILNPQSCRKLLELMTLDGYMKVREMVQTKFTGPPSLLAGLVSTGPRKPELIRR 1831

Query: 64   DHYFAN 70
             H FAN
Sbjct: 1832 KHLFAN 1837

[Close]

BLAST of Lsi05G013420 vs. NCBI nr
Match: gi|778679278|ref|XP_011651113.1| (PREDICTED: uncharacterized protein LOC101216506 [Cucumis sativus])

HSP 1 Score: 136.3 bits (342), Expect = 3.3e-29
Identity = 65/76 (85.53%), Postives = 71/76 (93.42%), Query Frame = 1


Query: 1    MKVDIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKF 60
            ++VDIIQRMNVL PQSCKKLLELM+LD+HI VRKMYQSKF GPPGILGTL+ RS +ESKF
Sbjct: 1772 LEVDIIQRMNVLTPQSCKKLLELMVLDSHITVRKMYQSKFGGPPGILGTLVGRSSKESKF 1831

Query: 61   VCRDHYFANPMSTSLL 77
            VCRDHYFANPMSTSLL
Sbjct: 1832 VCRDHYFANPMSTSLL 1847

[Close]

BLAST of Lsi05G013420 vs. NCBI nr
Match: gi|659077179|ref|XP_008439073.1| (PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC103483968 [Cucumis melo])

HSP 1 Score: 131.3 bits (329), Expect = 1.1e-27
Identity = 63/76 (82.89%), Postives = 70/76 (92.11%), Query Frame = 1


Query: 1    MKVDIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKF 60
            ++VDIIQRMNVL PQSCK LLELM+LD+HI VRKMYQSKFSGPPGILG L+ RS +ESKF
Sbjct: 1774 LEVDIIQRMNVLTPQSCKMLLELMVLDSHIRVRKMYQSKFSGPPGILGALVGRSSKESKF 1833

Query: 61   VCRDHYFANPMSTSLL 77
            VCRDHYFANPMS+SLL
Sbjct: 1834 VCRDHYFANPMSSSLL 1849

[Close]

BLAST of Lsi05G013420 vs. NCBI nr
Match: gi|764609618|ref|XP_011467425.1| (PREDICTED: uncharacterized protein LOC101308114 isoform X1 [Fragaria vesca subsp. vesca])

HSP 1 Score: 110.2 bits (274), Expect = 2.5e-21
Identity = 52/73 (71.23%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II RM+VLNPQSC+KLLELM+LD H+ VRKM+Q+  +GPP ILG LL  SY+ SK VCR
Sbjct: 1805 EIIHRMDVLNPQSCRKLLELMVLDNHLHVRKMHQTTCAGPPPILGALLGSSYKPSKLVCR 1864

Query: 64   DHYFANPMSTSLL 77
            +HYFANPMSTSLL
Sbjct: 1865 EHYFANPMSTSLL 1877

[Close]

BLAST of Lsi05G013420 vs. NCBI nr
Match: gi|764609621|ref|XP_011467426.1| (PREDICTED: uncharacterized protein LOC101308114 isoform X2 [Fragaria vesca subsp. vesca])

HSP 1 Score: 110.2 bits (274), Expect = 2.5e-21
Identity = 52/73 (71.23%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            +II RM+VLNPQSC+KLLELM+LD H+ VRKM+Q+  +GPP ILG LL  SY+ SK VCR
Sbjct: 1782 EIIHRMDVLNPQSCRKLLELMVLDNHLHVRKMHQTTCAGPPPILGALLGSSYKPSKLVCR 1841

Query: 64   DHYFANPMSTSLL 77
            +HYFANPMSTSLL
Sbjct: 1842 EHYFANPMSTSLL 1854

[Close]

BLAST of Lsi05G013420 vs. NCBI nr
Match: gi|1009174036|ref|XP_015868135.1| (PREDICTED: uncharacterized protein LOC107405579 [Ziziphus jujuba])

HSP 1 Score: 106.7 bits (265), Expect = 2.8e-20
Identity = 51/73 (69.86%), Postives = 62/73 (84.93%), Query Frame = 1


Query: 4    DIIQRMNVLNPQSCKKLLELMMLDAHIIVRKMYQSKFSGPPGILGTLLSRSYRESKFVCR 63
            DII+RM+VLNPQSC+KLLELM+LD HI VRKM+Q   +GPP ILGTL   S+ +SK VCR
Sbjct: 1428 DIIRRMDVLNPQSCRKLLELMILDNHIYVRKMHQYISNGPPLILGTLFGSSFSKSKLVCR 1487

Query: 64   DHYFANPMSTSLL 77
            +H+FANPMST+LL
Sbjct: 1488 EHFFANPMSTALL 1500

The following BLAST results are available for this feature:

BLAST of Lsi05G013420 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Lsi05G013420 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LAZ9_CUCSA	2.3e-29	85.53	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G174540 PE=4 SV=1	[more]
A0A067FFX0_CITSI	3.3e-20	64.38	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1	[more]
A0A067FCB0_CITSI	3.3e-20	64.38	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1	[more]
A0A067FPC5_CITSI	3.3e-20	64.38	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g000364mg PE=4 SV=1	[more]
V4RY16_9ROSI	8.1e-19	61.64	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10024687mg PE=4 SV=1	[more]

BLAST of Lsi05G013420 vs. TAIR10


Match Name	E-value	Identity	Description
AT1G58766.1	4.4e-16	56.06	BEST Arabidopsis thaliana protein match is: B-block binding subunit ...	[more]
AT1G59453.1	4.4e-16	56.06	B-block binding subunit of TFIIIC	[more]
AT1G59077.1	4.4e-16	56.06	BEST Arabidopsis thaliana protein match is: B-block binding subunit ...	[more]
AT1G17450.2	2.4e-14	53.03	B-block binding subunit of TFIIIC	[more]

BLAST of Lsi05G013420 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|778679278\|ref\|XP_011651113.1\|	3.3e-29	85.53	PREDICTED: uncharacterized protein LOC101216506 [Cucumis sativus]	[more]
gi\|659077179\|ref\|XP_008439073.1\|	1.1e-27	82.89	PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC103483968 [Cucumis me...	[more]
gi\|764609618\|ref\|XP_011467425.1\|	2.5e-21	71.23	PREDICTED: uncharacterized protein LOC101308114 isoform X1 [Fragaria vesca subsp...	[more]
gi\|764609621\|ref\|XP_011467426.1\|	2.5e-21	71.23	PREDICTED: uncharacterized protein LOC101308114 isoform X2 [Fragaria vesca subsp...	[more]
gi\|1009174036\|ref\|XP_015868135.1\|	2.8e-20	69.86	PREDICTED: uncharacterized protein LOC107405579 [Ziziphus jujuba]	[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: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
Lsi05G013420.1	Lsi05G013420.1	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	PTHR15180	GENERAL TRANSCRIPTION FACTOR 3C POLYPEPTIDE 1	coord: 4..76 score: 3.3
None	No IPR available	PANTHER	PTHR15180:SF1	GENERAL TRANSCRIPTION FACTOR 3C POLYPEPTIDE 1	coord: 4..76 score: 3.3

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Lsi05G013420	Cucumber (Gy14) v1	cgylsiB416
Lsi05G013420	Cucurbita maxima (Rimu)	cmalsiB246
Lsi05G013420	Cucurbita maxima (Rimu)	cmalsiB765
Lsi05G013420	Cucurbita moschata (Rifu)	cmolsiB234
Lsi05G013420	Cucurbita moschata (Rifu)	cmolsiB759
Lsi05G013420	Cucurbita pepo (Zucchini)	cpelsiB507
Lsi05G013420	Cucurbita pepo (Zucchini)	cpelsiB715
Lsi05G013420	Wild cucumber (PI 183967)	cpilsiB208
Lsi05G013420	Cucumber (Chinese Long) v2	culsiB210
Lsi05G013420	Melon (DHL92) v3.5.1	lsimeB379
Lsi05G013420	Watermelon (Charleston Gray)	lsiwcgB336
Lsi05G013420	Watermelon (97103) v1	lsiwmB366
Lsi05G013420	Cucumber (Gy14) v2	cgyblsiB197
Lsi05G013420	Melon (DHL92) v3.6.1	lsimedB397
Lsi05G013420	Silver-seed gourd	carlsiB633
Lsi05G013420	Silver-seed gourd	carlsiB951
Lsi05G013420	Cucumber (Chinese Long) v3	cuclsiB229
Lsi05G013420	Cucumber (Chinese Long) v3	cuclsiB245
Lsi05G013420	Watermelon (97103) v2	lsiwmbB334
Lsi05G013420	Wax gourd	lsiwgoB444