Lsi07G014170 (gene) Bottle gourd (USVL1VR-Ls) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Lsi07G014170
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls))
Description	C2H2-like zinc finger protein
Location	chr07 : 20695884 .. 20696503 (-)

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.

ATGCAAAGTGTGTAATAGAGATTTCAATTCCATCAAAGCATTGTATGGTCATATGAGGTCTCATCCCAATAGAACATGGAAGAGAATCCAACCACCAATCTCCATCTCTTCTTCTATCTCGTCATCGTCCTCGTCTTCGTCTTTGCCGAGCTGGTCCCTCACTGCCGAGGGGTCGTAAGGGTATTGGCTCTGTAGCTGTTACTACCTCCTCCTCTTCTTCAACTTCTGAAGCTGAACCCAGATCTCGTTTTGCCCTAATCGATAGGATGGATCAACGAAAAGAGAATAATGTGAGTAGTCTTCCAATGAAGAAAAGGAAGAATGGTTGGGATGATTCCGTAATAGGTGAAAATGAAATCCATGAGCTGAAAGAGGTGAAGAAATTATATAAATGCAATAGGTGTGGAAAAGGGTTTTGGTCTCACCAAGCATTGGGAGGCCATAAATCTAGCCACTACAAACCCAAATTTCAGTTATTAGTTTCCCCAATTTTGACTCACATTCCTCAAGAGAGGAGGATCCCTAATTTTGATCTCAATGAGCTCCCACCGAACGAAGACGACTATAACGACAACGACAACGGAGAAGCTAAAGCAAGCATAGCTTATCAGGTCAGATAA

mRNA sequence

ATGCAAAAACATGGAAGAGAATCCAACCACCAATCTCCATCTCTTCTTCTATCTCGTCATCGTCCTCGTCTTCGTCTTTGCCGAGCTGGTCCCTCACTGCCGAGGGGTCGTAAGGGTATTGGCTCTGTAGCTGTTACTACCTCCTCCTCTTCTTCAACTTCTGAAGCTGAACCCAGATCTCGTTTTGCCCTAATCGATAGGATGGATCAACGAAAAGAGAATAATGTGAGTAGTCTTCCAATGAAGAAAAGGAAGAATGGTTGGGATGATTCCGTAATAGGTGAAAATGAAATCCATGAGCTGAAAGAGGTGAAGAAATTATATAAATGCAATAGGTGTGGAAAAGGGTTTTGGTCTCACCAAGCATTGGGAGGCCATAAATCTAGCCACTACAAACCCAAATTTCAGTTATTAGTTTCCCCAATTTTGACTCACATTCCTCAAGAGAGGAGGATCCCTAATTTTGATCTCAATGAGCTCCCACCGAACGAAGACGACTATAACGACAACGACAACGGAGAAGCTAAAGCAAGCATAGCTTATCAGGTCAGATAA

Coding sequence (CDS)

ATGCAAAAACATGGAAGAGAATCCAACCACCAATCTCCATCTCTTCTTCTATCTCGTCATCGTCCTCGTCTTCGTCTTTGCCGAGCTGGTCCCTCACTGCCGAGGGGTCGTAAGGGTATTGGCTCTGTAGCTGTTACTACCTCCTCCTCTTCTTCAACTTCTGAAGCTGAACCCAGATCTCGTTTTGCCCTAATCGATAGGATGGATCAACGAAAAGAGAATAATGTGAGTAGTCTTCCAATGAAGAAAAGGAAGAATGGTTGGGATGATTCCGTAATAGGTGAAAATGAAATCCATGAGCTGAAAGAGGTGAAGAAATTATATAAATGCAATAGGTGTGGAAAAGGGTTTTGGTCTCACCAAGCATTGGGAGGCCATAAATCTAGCCACTACAAACCCAAATTTCAGTTATTAGTTTCCCCAATTTTGACTCACATTCCTCAAGAGAGGAGGATCCCTAATTTTGATCTCAATGAGCTCCCACCGAACGAAGACGACTATAACGACAACGACAACGGAGAAGCTAAAGCAAGCATAGCTTATCAGGTCAGATAA

Protein sequence

MQKHGRESNHQSPSLLLSRHRPRLRLCRAGPSLPRGRKGIGSVAVTTSSSSSTSEAEPRSRFALIDRMDQRKENNVSSLPMKKRKNGWDDSVIGENEIHELKEVKKLYKCNRCGKGFWSHQALGGHKSSHYKPKFQLLVSPILTHIPQERRIPNFDLNELPPNEDDYNDNDNGEAKASIAYQVR

Homology

[Close]

BLAST of Lsi07G014170 vs. TrEMBL
Match: A0A0A0L2N1_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G043940 PE=4 SV=1)

HSP 1 Score: 82.8 bits (203), Expect = 4.8e-13
Identity = 64/144 (44.44%), Postives = 84/144 (58.33%), Query Frame = 1


Query: 35  RGRKGIG-----SVAVTTSSSSSTS----EAEPRSRFALIDRMDQRKENNVSSLPMKKRK 94
           RG KGIG     +VA  +SSSS +S    EA+  SRF+  D ++ +++       +KK K
Sbjct: 73  RGCKGIGCISTAAVAAPSSSSSRSSSLETEAKLESRFSDPDVVEDQRQ-------VKKMK 132

Query: 95  NGWDDSVIGENEIHELKEVKKLYKCNRCGKGFWSHQALGGHKSSHYKPKFQLLVSPILTH 154
                      +I+E+ E+ K+YKCN C K + SHQALGGHKS H K K  L  S  +T+
Sbjct: 133 -----------KINEI-ELNKVYKCNSCEKEYVSHQALGGHKSRHRKSKILLRTSSNVTN 192

Query: 155 -IPQERRIPNFDLNELPPNEDDYN 169
              QER+I NFDLNELP  EDD N
Sbjct: 193 PTHQERKILNFDLNELPTMEDDNN 197

[Close]

BLAST of Lsi07G014170 vs. TrEMBL
Match: M1C052_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400022147 PE=4 SV=1)

HSP 1 Score: 59.3 bits (142), Expect = 5.7e-06
Identity = 54/179 (30.17%), Postives = 80/179 (44.69%), Query Frame = 1


Query: 3   KHGRESNHQSPSLLLSRHRPRLRLCRAGPSLPRGRKG---IGSVAVTTSSSSSTSEAEPR 62
           K GR+ N +    L       L L   G S+  G  G   +  +  T S+ S TS+AE  
Sbjct: 155 KRGRKPNAEDDEQLQDAVH-HLMLLANGDSIESGVTGHDTLEELEKTNSNYSLTSKAENE 214

Query: 63  SRFALIDRMDQRKENNVSSLPMKKRKNGWDDSVIGENEIHELKEVKKLYKCNRCGKGFWS 122
              A ++ +D RK        ++   +      + ++         + +KCN CGK F +
Sbjct: 215 EFVAQLEIIDNRKRRKKKKTKLRHLNS------VQDSPASVTAATPEKFKCNTCGKSFAT 274

Query: 123 HQALGGHKSSHYKPKFQLLVSPILTHIPQER------------RIPNFDLNELPPNEDD 167
           HQALGGHKSSH K +  +  S +   I +E             RI +FDLNELP + +D
Sbjct: 275 HQALGGHKSSHNKLRIVIEDSNVAA-ISEEAAASSSKLLADGGRIVDFDLNELPSDHED 325

[Close]

BLAST of Lsi07G014170 vs. TAIR10
Match: AT3G49930.1 (AT3G49930.1 C2H2 and C2HC zinc fingers superfamily protein)

HSP 1 Score: 48.5 bits (114), Expect = 5.1e-06
Identity = 21/38 (55.26%), Postives = 28/38 (73.68%), Query Frame = 1


Query: 96  NEIHELKEVKKLYKCNRCGKGFWSHQALGGHKSSHYKP 134
           + +  L + +K YKC+ CGK F S+QALGGHK+SH KP
Sbjct: 82  HSLSPLSDHQKDYKCSVCGKSFPSYQALGGHKTSHRKP 119

[Close]

BLAST of Lsi07G014170 vs. NCBI nr
Match: gi|659096600|ref|XP_008449183.1| (PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC103491133 [Cucumis melo])

HSP 1 Score: 87.0 bits (214), Expect = 3.6e-14
Identity = 71/152 (46.71%), Postives = 84/152 (55.26%), Query Frame = 1


Query: 35  RGRKGIGSVAVTTSSSSSTS-----EAEPRSRFALIDRM-DQRKENNVSSLPMKKRKNGW 94
           RG KGI  V    SSSSS S     EA+  S ++  D + DQRK        +KK K   
Sbjct: 73  RGCKGISCVTAAPSSSSSRSSSSETEAKLESLYSNPDVVEDQRK--------VKKMK--- 132

Query: 95  DDSVIGENEIHELKEVKKLYKCNRCGKGFWSHQALGGHKSSHYKPKFQLLVSP-ILTHIP 154
                   +I+E+ E+KK+YKCN C K + SHQALGGHKS H K K  L  S  + T   
Sbjct: 133 --------KINEI-ELKKVYKCNSCEKEYLSHQALGGHKSRHRKSKILLRTSSNLTTRTH 192

Query: 155 QERRIPNFDLNELPPNEDDYNDNDNGEAKASI 180
           QER+I NFDLNELP  E D    DN E KASI
Sbjct: 193 QERKILNFDLNELPTMEHD----DNEEVKASI 200

[Close]

BLAST of Lsi07G014170 vs. NCBI nr
Match: gi|700200845|gb|KGN55978.1| (hypothetical protein Csa_3G043940 [Cucumis sativus])

HSP 1 Score: 82.8 bits (203), Expect = 6.9e-13
Identity = 64/144 (44.44%), Postives = 84/144 (58.33%), Query Frame = 1


Query: 35  RGRKGIG-----SVAVTTSSSSSTS----EAEPRSRFALIDRMDQRKENNVSSLPMKKRK 94
           RG KGIG     +VA  +SSSS +S    EA+  SRF+  D ++ +++       +KK K
Sbjct: 73  RGCKGIGCISTAAVAAPSSSSSRSSSLETEAKLESRFSDPDVVEDQRQ-------VKKMK 132

Query: 95  NGWDDSVIGENEIHELKEVKKLYKCNRCGKGFWSHQALGGHKSSHYKPKFQLLVSPILTH 154
                      +I+E+ E+ K+YKCN C K + SHQALGGHKS H K K  L  S  +T+
Sbjct: 133 -----------KINEI-ELNKVYKCNSCEKEYVSHQALGGHKSRHRKSKILLRTSSNVTN 192

Query: 155 -IPQERRIPNFDLNELPPNEDDYN 169
              QER+I NFDLNELP  EDD N
Sbjct: 193 PTHQERKILNFDLNELPTMEDDNN 197

[Close]

BLAST of Lsi07G014170 vs. NCBI nr
Match: gi|565358852|ref|XP_006346239.1| (PREDICTED: zinc finger protein ZAT2 [Solanum tuberosum])

HSP 1 Score: 59.3 bits (142), Expect = 8.1e-06
Identity = 54/179 (30.17%), Postives = 80/179 (44.69%), Query Frame = 1


Query: 3   KHGRESNHQSPSLLLSRHRPRLRLCRAGPSLPRGRKG---IGSVAVTTSSSSSTSEAEPR 62
           K GR+ N +    L       L L   G S+  G  G   +  +  T S+ S TS+AE  
Sbjct: 155 KRGRKPNAEDDEQLQDAVH-HLMLLANGDSIESGVTGHDTLEELEKTNSNYSLTSKAENE 214

Query: 63  SRFALIDRMDQRKENNVSSLPMKKRKNGWDDSVIGENEIHELKEVKKLYKCNRCGKGFWS 122
              A ++ +D RK        ++   +      + ++         + +KCN CGK F +
Sbjct: 215 EFVAQLEIIDNRKRRKKKKTKLRHLNS------VQDSPASVTAATPEKFKCNTCGKSFAT 274

Query: 123 HQALGGHKSSHYKPKFQLLVSPILTHIPQER------------RIPNFDLNELPPNEDD 167
           HQALGGHKSSH K +  +  S +   I +E             RI +FDLNELP + +D
Sbjct: 275 HQALGGHKSSHNKLRIVIEDSNVAA-ISEEAAASSSKLLADGGRIVDFDLNELPSDHED 325

The following BLAST results are available for this feature:

BLAST of Lsi07G014170 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Lsi07G014170 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L2N1_CUCSA	4.8e-13	44.44	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G043940 PE=4 SV=1	[more]
M1C052_SOLTU	5.7e-06	30.17	Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400022147 PE=4 SV=1	[more]

BLAST of Lsi07G014170 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G49930.1	5.1e-06	55.26	C2H2 and C2HC zinc fingers superfamily protein	[more]

BLAST of Lsi07G014170 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659096600\|ref\|XP_008449183.1\|	3.6e-14	46.71	PREDICTED: LOW QUALITY PROTEIN: uncharacterized protein LOC103491133 [Cucumis me...	[more]
gi\|700200845\|gb\|KGN55978.1\|	6.9e-13	44.44	hypothetical protein Csa_3G043940 [Cucumis sativus]	[more]
gi\|565358852\|ref\|XP_006346239.1\|	8.1e-06	30.17	PREDICTED: zinc finger protein ZAT2 [Solanum tuberosum]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Molecular Function**
Term	Definition
GO:0003676	nucleic acid binding
GO:0046872	metal ion binding

Vocabulary: **INTERPRO**
Term	Definition
IPR013087	Znf_C2H2_type
IPR007087	Zinc finger, C2H2

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:0046872	metal ion binding
molecular_function	GO:0003676	nucleic acid binding

Relationships

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


Feature Name	Unique Name	Type
Lsi07G014170.1	Lsi07G014170.1	mRNA

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR007087	Zinc finger, C2H2	PFAM	PF13912	zf-C2H2_6	coord: 108..132 score: 4.
IPR007087	Zinc finger, C2H2	PROSITE	PS00028	ZINC_FINGER_C2H2_1	coord: 110..130 scor
IPR007087	Zinc finger, C2H2	PROFILE	PS50157	ZINC_FINGER_C2H2_2	coord: 108..135 score: 1
IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain	GENE3D	G3DSA:3.30.160.60		coord: 108..130 score: 5.
None	No IPR available	unknown	SSF57667	beta-beta-alpha zinc fingers	coord: 105..134 score: 8.0

Synteny

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


Gene	Orthologue	Organism	Block
Lsi07G014170	Csa3G043940	Cucumber (Chinese Long) v2	culsiB228
Lsi07G014170	CSPI03G03710	Wild cucumber (PI 183967)	cpilsiB227
Lsi07G014170	Cla004425	Watermelon (97103) v1	lsiwmB430
Lsi07G014170	MELO3C014059	Melon (DHL92) v3.5.1	lsimeB446
Lsi07G014170	ClCG10G003920	Watermelon (Charleston Gray)	lsiwcgB390
Lsi07G014170	Bhi11G000320	Wax gourd	lsiwgoB534
Lsi07G014170	CsGy3G003720	Cucumber (Gy14) v2	cgyblsiB217
Lsi07G014170	CsaV3_3G003770	Cucumber (Chinese Long) v3	cuclsiB250

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Lsi07G014170	Cucumber (Gy14) v1	cgylsiB016
Lsi07G014170	Cucurbita maxima (Rimu)	cmalsiB327
Lsi07G014170	Cucurbita maxima (Rimu)	cmalsiB775
Lsi07G014170	Cucurbita moschata (Rifu)	cmolsiB316
Lsi07G014170	Cucurbita moschata (Rifu)	cmolsiB766
Lsi07G014170	Cucurbita pepo (Zucchini)	cpelsiB186
Lsi07G014170	Cucurbita pepo (Zucchini)	cpelsiB721
Lsi07G014170	Watermelon (Charleston Gray)	lsiwcgB384
Lsi07G014170	Watermelon (Charleston Gray)	lsiwcgB389
Lsi07G014170	Melon (DHL92) v3.6.1	lsimedB462
Lsi07G014170	Silver-seed gourd	carlsiB013
Lsi07G014170	Silver-seed gourd	carlsiB786
Lsi07G014170	Watermelon (97103) v2	lsiwmbB395