Bhi02G001064 (gene) Wax gourd | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Bhi02G001064
Type	gene
Organism	Benincasa hispida (Wax gourd)
Description	exosome complex component CSL4
Location	chr2 : 31098035 .. 31098253 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGAAAGAAGGCGAGGAAGAGACTACTGAGTTCGTCACTCCAGGTGAAGTTCTCGGAATCTTTTCCGACTTCAGACCTGGAAGAGGCGCTTATGTCTTCAACAACACTGTTTATGCTTCTCTTTCTGGTTTCCGCCGCACTATTCCTCCTCCCACCGACTCTTCGGATCTAGTACAACTCTTTTTCTTCACTCTTTCTGTTTTTTGCTTCATCTTTTGA

mRNA sequence

ATGAAAGAAGGCGAGGAAGAGACTACTGAGTTCGTCACTCCAGGTGAAGTTCTCGGAATCTTTTCCGACTTCAGACCTGGAAGAGGCGCTTATGTCTTCAACAACACTGTTTATGCTTCTCTTTCTGGTTTCCGCCGCACTATTCCTCCTCCCACCGACTCTTCGGATCTAGTACAACTCTTTTTCTTCACTCTTTCTGTTTTTTGCTTCATCTTTTGA

Coding sequence (CDS)

ATGAAAGAAGGCGAGGAAGAGACTACTGAGTTCGTCACTCCAGGTGAAGTTCTCGGAATCTTTTCCGACTTCAGACCTGGAAGAGGCGCTTATGTCTTCAACAACACTGTTTATGCTTCTCTTTCTGGTTTCCGCCGCACTATTCCTCCTCCCACCGACTCTTCGGATCTAGTACAACTCTTTTTCTTCACTCTTTCTGTTTTTTGCTTCATCTTTTGA

Protein sequence

MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSDLVQLFFFTLSVFCFIF

Homology

[Close]

BLAST of Bhi02G001064 vs. TAIR10
Match: AT5G38890.1 (Nucleic acid-binding, OB-fold-like protein)

HSP 1 Score: 53.5 bits (127), Expect = 6.2e-08
Identity = 24/49 (48.98%), Postives = 35/49 (71.43%), Query Frame = 0


Query: 8  TTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSD 57
          TT  VTPG+V+G  ++F+ G+GAYV + T+YASL+G  R + P  +S D
Sbjct: 2  TTGLVTPGDVIGKATEFKAGKGAYVNDATIYASLTGTCRIVSPLPESID 50

[Close]

BLAST of Bhi02G001064 vs. TrEMBL
Match: tr|A0A1S3CMV8|A0A1S3CMV8_CUCME (exosome complex component CSL4 OS=Cucumis melo OX=3656 GN=LOC103502755 PE=4 SV=1)

HSP 1 Score: 99.8 bits (247), Expect = 2.7e-18
Identity = 48/57 (84.21%), Postives = 53/57 (92.98%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSDL 58
          MKEGE+E TEFVTPGE+LG FSDF+PGRGAYV +NTVYASLSGFRR IPPP+DSSDL
Sbjct: 1  MKEGEKE-TEFVTPGEILGNFSDFKPGRGAYVADNTVYASLSGFRRIIPPPSDSSDL 56

[Close]

BLAST of Bhi02G001064 vs. TrEMBL
Match: tr|A0A0A0L935|A0A0A0L935_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G627150 PE=4 SV=1)

HSP 1 Score: 95.5 bits (236), Expect = 5.2e-17
Identity = 47/57 (82.46%), Postives = 52/57 (91.23%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSDL 58
          MKEGE++ TEFVTPGEVLG FSDF+PGRGAYV +NTVYASLSGFRR I PP+DSSDL
Sbjct: 1  MKEGEKD-TEFVTPGEVLGNFSDFKPGRGAYVTDNTVYASLSGFRRIIHPPSDSSDL 56

[Close]

BLAST of Bhi02G001064 vs. TrEMBL
Match: tr|A0A1S3V5W2|A0A1S3V5W2_VIGRR (exosome complex component CSL4 OS=Vigna radiata var. radiata OX=3916 GN=LOC106772089 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 2.1e-10
Identity = 37/54 (68.52%), Postives = 40/54 (74.07%), Query Frame = 0


Query: 5  EEETTEFVTPGEVLGIFSDFRPGRGAYV--FNNTVYASLSGFRRTIPPPTDSSD 57
          EE+    VTPGEVLG  SD + GRGAY    NNTVYASL+GFRRTIPPP DS D
Sbjct: 3  EEKEAVMVTPGEVLGRSSDVKAGRGAYAAPHNNTVYASLTGFRRTIPPPPDSPD 56

[Close]

BLAST of Bhi02G001064 vs. TrEMBL
Match: tr|A0A0L9THS3|A0A0L9THS3_PHAAN (Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan845s003900 PE=4 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 6.1e-10
Identity = 36/54 (66.67%), Postives = 39/54 (72.22%), Query Frame = 0


Query: 5  EEETTEFVTPGEVLGIFSDFRPGRGAYV--FNNTVYASLSGFRRTIPPPTDSSD 57
          EE+    VTPGEVLG  SD + GRGAY    NNTVYASL+GF RTIPPP DS D
Sbjct: 3  EEKEAPMVTPGEVLGRSSDVKAGRGAYAAPHNNTVYASLTGFHRTIPPPPDSPD 56

[Close]

BLAST of Bhi02G001064 vs. TrEMBL
Match: tr|A0A0S3SQ27|A0A0S3SQ27_PHAAN (Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.08G157100 PE=4 SV=1)

HSP 1 Score: 72.0 bits (175), Expect = 6.1e-10
Identity = 36/54 (66.67%), Postives = 39/54 (72.22%), Query Frame = 0


Query: 5  EEETTEFVTPGEVLGIFSDFRPGRGAYV--FNNTVYASLSGFRRTIPPPTDSSD 57
          EE+    VTPGEVLG  SD + GRGAY    NNTVYASL+GF RTIPPP DS D
Sbjct: 3  EEKEAPMVTPGEVLGRSSDVKAGRGAYAAPHNNTVYASLTGFHRTIPPPPDSPD 56

[Close]

BLAST of Bhi02G001064 vs. NCBI nr
Match: XP_008465048.1 (PREDICTED: exosome complex component CSL4 [Cucumis melo])

HSP 1 Score: 99.8 bits (247), Expect = 4.1e-18
Identity = 48/57 (84.21%), Postives = 53/57 (92.98%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSDL 58
          MKEGE+E TEFVTPGE+LG FSDF+PGRGAYV +NTVYASLSGFRR IPPP+DSSDL
Sbjct: 1  MKEGEKE-TEFVTPGEILGNFSDFKPGRGAYVADNTVYASLSGFRRIIPPPSDSSDL 56

[Close]

BLAST of Bhi02G001064 vs. NCBI nr
Match: XP_022934020.1 (exosome complex component CSL4 [Cucurbita moschata])

HSP 1 Score: 97.4 bits (241), Expect = 2.0e-17
Identity = 48/56 (85.71%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSD 57
          MKEGEEE TEFVTPGEVLG FSD +PG+GAYV NNTVYASLSGFRR I PPTDSSD
Sbjct: 1  MKEGEEE-TEFVTPGEVLGKFSDMKPGKGAYVANNTVYASLSGFRRIISPPTDSSD 55

[Close]

BLAST of Bhi02G001064 vs. NCBI nr
Match: XP_023530831.1 (exosome complex component CSL4 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 97.4 bits (241), Expect = 2.0e-17
Identity = 48/56 (85.71%), Postives = 50/56 (89.29%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSD 57
          MKEGEEE TEFVTPGEVLG FSD +PG+GAYV NNTVYASLSGFRR I PPTDSSD
Sbjct: 3  MKEGEEE-TEFVTPGEVLGKFSDMKPGKGAYVANNTVYASLSGFRRIISPPTDSSD 57

[Close]

BLAST of Bhi02G001064 vs. NCBI nr
Match: XP_004144376.1 (PREDICTED: exosome complex component CSL4 [Cucumis sativus] >KGN58353.1 hypothetical protein Csa_3G627150 [Cucumis sativus])

HSP 1 Score: 95.5 bits (236), Expect = 7.8e-17
Identity = 47/57 (82.46%), Postives = 52/57 (91.23%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSDL 58
          MKEGE++ TEFVTPGEVLG FSDF+PGRGAYV +NTVYASLSGFRR I PP+DSSDL
Sbjct: 1  MKEGEKD-TEFVTPGEVLGNFSDFKPGRGAYVTDNTVYASLSGFRRIIHPPSDSSDL 56

[Close]

BLAST of Bhi02G001064 vs. NCBI nr
Match: XP_022974279.1 (exosome complex component CSL4 [Cucurbita maxima])

HSP 1 Score: 94.7 bits (234), Expect = 1.3e-16
Identity = 47/56 (83.93%), Postives = 49/56 (87.50%), Query Frame = 0


Query: 1  MKEGEEETTEFVTPGEVLGIFSDFRPGRGAYVFNNTVYASLSGFRRTIPPPTDSSD 57
          MK GEEE TEFVTPGEVLG FSD +PG+GAYV NNTVYASLSGFRR I PPTDSSD
Sbjct: 5  MKVGEEE-TEFVTPGEVLGKFSDMKPGKGAYVANNTVYASLSGFRRIISPPTDSSD 59

The following BLAST results are available for this feature:

BLAST of Bhi02G001064 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of Bhi02G001064 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G38890.1	6.2e-08	48.98	Nucleic acid-binding, OB-fold-like protein	[more]

BLAST of Bhi02G001064 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A1S3CMV8\|A0A1S3CMV8_CUCME	2.7e-18	84.21	exosome complex component CSL4 OS=Cucumis melo OX=3656 GN=LOC103502755 PE=4 SV=1	[more]
tr\|A0A0A0L935\|A0A0A0L935_CUCSA	5.2e-17	82.46	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G627150 PE=4 SV=1	[more]
tr\|A0A1S3V5W2\|A0A1S3V5W2_VIGRR	2.1e-10	68.52	exosome complex component CSL4 OS=Vigna radiata var. radiata OX=3916 GN=LOC10677...	[more]
tr\|A0A0L9THS3\|A0A0L9THS3_PHAAN	6.1e-10	66.67	Uncharacterized protein OS=Phaseolus angularis OX=3914 GN=LR48_Vigan845s003900 P...	[more]
tr\|A0A0S3SQ27\|A0A0S3SQ27_PHAAN	6.1e-10	66.67	Uncharacterized protein OS=Vigna angularis var. angularis OX=157739 GN=Vigan.08G...	[more]

BLAST of Bhi02G001064 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_008465048.1	4.1e-18	84.21	PREDICTED: exosome complex component CSL4 [Cucumis melo]	[more]
XP_022934020.1	2.0e-17	85.71	exosome complex component CSL4 [Cucurbita moschata]	[more]
XP_023530831.1	2.0e-17	85.71	exosome complex component CSL4 [Cucurbita pepo subsp. pepo]	[more]
XP_004144376.1	7.8e-17	82.46	PREDICTED: exosome complex component CSL4 [Cucumis sativus] >KGN58353.1 hypothet...	[more]
XP_022974279.1	1.3e-16	83.93	exosome complex component CSL4 [Cucurbita maxima]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR025721	Exosome_cplx_N_dom

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006396	RNA processing
biological_process	GO:0006626	protein targeting to mitochondrion
biological_process	GO:0008150	biological_process
cellular_component	GO:0005737	cytoplasm
cellular_component	GO:0000176	nuclear exosome (RNase complex)
cellular_component	GO:0000178	exosome (RNase complex)
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Bhi02M001064	Bhi02M001064	mRNA

InterPro

Analysis Name: InterPro Annotations of wax gourd
Date Performed: 2019-11-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR025721	Exosome complex component, N-terminal domain	PFAM	PF14382	ECR1_N	coord: 11..46 e-value: 3.4E-12 score: 45.8
None	No IPR available	GENE3D	G3DSA:2.40.50.100		coord: 10..56 e-value: 8.6E-10 score: 39.9
None	No IPR available	SUPERFAMILY	SSF110324	Ribosomal L27 protein-like	coord: 11..45

Synteny

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


Gene	Orthologue	Organism	Block
Bhi02G001064	ClCG03G011510	Watermelon (Charleston Gray)	wcgwgoB371
Bhi02G001064	CmaCh11G009600	Cucurbita maxima (Rimu)	cmawgoB0169
Bhi02G001064	CmoCh11G009830	Cucurbita moschata (Rifu)	cmowgoB0162
Bhi02G001064	Lsi06G007630	Bottle gourd (USVL1VR-Ls)	lsiwgoB521
Bhi02G001064	Cp4.1LG04g02020	Cucurbita pepo (Zucchini)	cpewgoB0899
Bhi02G001064	Cp4.1LG18g01030	Cucurbita pepo (Zucchini)	cpewgoB0475
Bhi02G001064	Carg16466	Silver-seed gourd	carwgoB1057
Bhi02G001064	Cla97C03G061870	Watermelon (97103) v2	wgowmbB640

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Bhi02G001064	Cucumber (Gy14) v1	cgywgoB791
Bhi02G001064	Cucumber (Gy14) v2	cgybwgoB100
Bhi02G001064	Cucumber (Gy14) v2	cgybwgoB113
Bhi02G001064	Cucurbita maxima (Rimu)	cmawgoB0082
Bhi02G001064	Cucurbita moschata (Rifu)	cmowgoB0076
Bhi02G001064	Wild cucumber (PI 183967)	cpiwgoB113
Bhi02G001064	Cucumber (Chinese Long) v3	cucwgoB118
Bhi02G001064	Cucumber (Chinese Long) v2	cuwgoB111
Bhi02G001064	Bottle gourd (USVL1VR-Ls)	lsiwgoB531
Bhi02G001064	Melon (DHL92) v3.6.1	medwgoB310
Bhi02G001064	Melon (DHL92) v3.5.1	mewgoB316
Bhi02G001064	Silver-seed gourd	carwgoB0363