CmaCh04G018980 (gene) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh04G018980
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	Nucleic acid binding/RNA binding protein
Location	Cma_Chr04 : 9921490 .. 9923676 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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

ATGGTAAGAGTAAATTTGAAACTTTATTGACAGTTTCGTGTTCTTATTGAAACTTTTGAAAAATTAGAAATATTTGTTAGATTAAACACAAAATTTAGGGATATTTTTATTAAGGTTGAATCGATAAAAATAGCGTGAGTTTCACTTTATCTCAAAAATACTTTTATCTTTAATTTTGGATAGAAACCATTAATACTGCAGTTGGGAAAATATCTATAAAATATCTATAAATTTTAAAAAAAAACTAGAAAAAGTTTGAAAATAATTTAGGATAACATTAATTCTGGTTTTAAAATTTTATAAATATTCATTTAAATATAGTTCAAAGGGTATTTTAAAATATTTTTAAAATCTTCAAAAATAATATTTTTGAAATAGAGTACACTCGTGGTATGAAAATTAATAATTTAGTTATATTTTTATTAGTTTAGTCTATTTTTTATTAATACAAAAAAAATATTTCTTTCACTGGAAAACAGCTTAAAGTTTTGATTTCCTATGAATTATTATTATTATTATTATTATTATTTGTGGTAGAAAAATATTGATCAATATGCTTATATTTATATATCTATGAATGGAAAGATATGTTAATCCTTATACATTATTATATATTTTTTCCAAATAATTTTAAAAATATAATTATTAAAAACGGGTGCCCGTCCCTACTTTGGGCCGACCCGGATTTCAAAGCCCGAACACTGAACCTTGAAAGGGCTTCTTCGTTCTAAATCGCGATGGAGGCGGTGTTGTGTGTGCCTTATTCTTCGTCCAGATTTTCCCAATTTCACGCTCTTTTTCTTCCTTCTCCTCCTCTGTTCATCCCTGCAAGATATTCTCTCACACCATTCTATAGTTTCAACTTCTCAATTCATCTTCTACCAAAATGCAAGGAGGAGAAGATGTAAGCATGGAAGAGTTGGCTACTAATCTCTCTACCTACAAAGACCAGCTTCAGCAGGTGATCCTCTTGCCCAATCCTTTCTGGCTATGAATTGCTTTTTTTTTTTCGTTAAATTTTCTTGATTTTGTTTCACTAACTGGGGTTCTCTTTCTTTAAATTTATTCGAAGCAAATTTGGATATCTATGATCATTTAAACCTTTGCCGGCGTCATTCTTGAGTTCTTTCTAGTAGTTTGTATCTGAATTAGGGTTTTTCTCACCTCCTTGGAGTGTTGCGGTGCTAAGTTGCAGCGATTCCCGAGGAAATGAAACCTGTATTGGATAATTGCATTAAACCTAGGAAGTTAGAACTTAATTCAGATATAGTATCAAGATTTCTTTTTTCGACTTTTCAGTTTAATGAGGTATTATCTGTCCTGGTTCTTTGGATTTTATTATTATTATTACTATAATTTTTTTTTTTTTATGTATTCAGAATTCTGAAATTTTTTATCAGGGTTTAAGCAACTGAAGAATTTTACATTTGTATGATGAACCTTTAATTATCAATCAGTCACTTCCTTACCATAACTAAATGAGTTCTTTGCTTCCCCACTTTGTTACTTTTTTTGTATACGTTTTTCAGTAAAATAACTTATTTCTATTCTGATCCAGGTCAGGGAGCTGTTAGATGATGATCCTGGCAACTCTGAGTACATAGATATGGAAAAGGAGCTTGAAGAGGTAGTTTAATTTTGTCCACCTAGTACGCCCATCCTTCCTTGTGAACTCGTCACATGTTTATGGTTTAGCACTCTTCATATTCCCATTGAATGTATTTTAGGGTCATCTTCTGCGGTAGCACTAAGTATCAGAGAACGCTCAGAACTATTTTATTTATTATGTGGATTTCCAGTCAAGTTTGCTTTATTTCTTTTGTCTGTCTTCTTTCTTCCTTTTAAAGGAAACATGTTGTGGAAATACTAGAGAGTTATGGTCCCTGTGGAGATTGTCATTCTCGTATTTGGGAGGAAAAGGTGAGGGCCGTGTATCTTTCATTTATGTGCTCCAGAGCTCTAATCTCTGGTCATAAATGATGATTATTGGATATGTGTGAAAATTTTGAACTTCCTCAAGATGCACATCACTTCTACCTTGGTTCCCTTGCAGGTGTGCTAATATTCGTTGGCAAGTCTGCTCTTCCACTGACCTCCTTTCAGATGCTGATCCTGAGATTTAAGTTCTTGTGTTTTTTTCTTTTTCTTTTTCTTTCCCTTCTTGGGACAAATACCTGCTCTTTATGA

mRNA sequence

ATGTTTCAACTTCTCAATTCATCTTCTACCAAAATGCAAGGAGGAGAAGATGTAAGCATGGAAGAGTTGGCTACTAATCTCTCTACCTACAAAGACCAGCTTCAGCAGGTCAGGGAGCTGTTAGATGATGATCCTGGCAACTCTGAGTACATAGATATGGAAAAGGAGCTTGAAGAGGAAACATGTTGTGGAAATACTAGAGAGTTATGGTCCCTGTGGAGATTGTCATTCTCGTATTTGGGAGGAAAAGGTGTGCTAATATTCGTTGGCAAGTCTGCTCTTCCACTGACCTCCTTTCAGATGCTGATCCTGAGATTTAAGTTCTTGTGTTTTTTTCTTTTTCTTTTTCTTTCCCTTCTTGGGACAAATACCTGCTCTTTATGA

Coding sequence (CDS)

ATGTTTCAACTTCTCAATTCATCTTCTACCAAAATGCAAGGAGGAGAAGATGTAAGCATGGAAGAGTTGGCTACTAATCTCTCTACCTACAAAGACCAGCTTCAGCAGGTCAGGGAGCTGTTAGATGATGATCCTGGCAACTCTGAGTACATAGATATGGAAAAGGAGCTTGAAGAGGAAACATGTTGTGGAAATACTAGAGAGTTATGGTCCCTGTGGAGATTGTCATTCTCGTATTTGGGAGGAAAAGGTGTGCTAATATTCGTTGGCAAGTCTGCTCTTCCACTGACCTCCTTTCAGATGCTGATCCTGAGATTTAAGTTCTTGTGTTTTTTTCTTTTTCTTTTTCTTTCCCTTCTTGGGACAAATACCTGCTCTTTATGA

Protein sequence

MFQLLNSSSTKMQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEEETCCGNTRELWSLWRLSFSYLGGKGVLIFVGKSALPLTSFQMLILRFKFLCFFLFLFLSLLGTNTCSL

Homology

[Close]

BLAST of CmaCh04G018980 vs. TrEMBL
Match: A0A0A0KUI2_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_5G526860 PE=4 SV=1)

HSP 1 Score: 89.0 bits (219), Expect = 4.6e-15
Identity = 44/48 (91.67%), Postives = 46/48 (95.83%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGEDVS+EELA NLSTYKDQL QVR+LLDDDPGNSEYIDMEKELEE
Sbjct: 1  MQGGEDVSIEELANNLSTYKDQLHQVRQLLDDDPGNSEYIDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. TrEMBL
Match: F6HK00_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0035g01830 PE=4 SV=1)

HSP 1 Score: 83.2 bits (204), Expect = 2.5e-13
Identity = 40/48 (83.33%), Postives = 47/48 (97.92%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGE++S++ELA+NLSTYKDQLQQVR+LL DDPGNSEY+DMEKELEE
Sbjct: 1  MQGGEELSIDELASNLSTYKDQLQQVRKLLVDDPGNSEYVDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. TrEMBL
Match: A0A0B0PS86_GOSAR (Survival of motor neuron-related-splicing factor 30 OS=Gossypium arboreum GN=F383_05055 PE=4 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 3.7e-12
Identity = 38/53 (71.70%), Postives = 48/53 (90.57%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKEL-EEETCC 64
          MQG +++S+ +LA+NLSTYK+QLQQVR+LL DDPGN+EY+DMEKEL EE TCC
Sbjct: 1  MQGTDELSIHDLASNLSTYKEQLQQVRQLLADDPGNAEYVDMEKELAEESTCC 53

[Close]

BLAST of CmaCh04G018980 vs. TrEMBL
Match: W1NYJ5_AMBTC (Uncharacterized protein OS=Amborella trichopoda GN=AMTR_s00099p00125580 PE=4 SV=1)

HSP 1 Score: 78.6 bits (192), Expect = 6.2e-12
Identity = 38/48 (79.17%), Postives = 45/48 (93.75%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGE++S++ELA+NLSTYKDQL QVR+LL+DDP NSEY DMEKELEE
Sbjct: 1  MQGGEELSIDELASNLSTYKDQLHQVRKLLEDDPNNSEYKDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. TrEMBL
Match: M0S0J8_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1)

HSP 1 Score: 77.4 bits (189), Expect = 1.4e-11
Identity = 37/48 (77.08%), Postives = 45/48 (93.75%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQG ED+S+E+LA+N+STYKDQL++VR+LL DDPGNSEY DMEKELEE
Sbjct: 1  MQGAEDLSIEDLASNVSTYKDQLREVRKLLADDPGNSEYADMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. TAIR10
Match: AT2G02570.1 (AT2G02570.1 nucleic acid binding;RNA binding)

HSP 1 Score: 64.7 bits (156), Expect = 4.7e-11
Identity = 30/46 (65.22%), Postives = 42/46 (91.30%), Query Frame = 1


Query: 14 GGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          G E++S+E+LA+++STYK+QL+QVR+LL +DP NSEY DMEKEL+E
Sbjct: 4  GVEELSIEQLASSISTYKEQLEQVRQLLSEDPRNSEYADMEKELKE 49

[Close]

BLAST of CmaCh04G018980 vs. NCBI nr
Match: gi|449450113|ref|XP_004142808.1| (PREDICTED: survival of motor neuron-related-splicing factor 30 isoform X1 [Cucumis sativus])

HSP 1 Score: 89.0 bits (219), Expect = 6.6e-15
Identity = 44/48 (91.67%), Postives = 46/48 (95.83%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGEDVS+EELA NLSTYKDQL QVR+LLDDDPGNSEYIDMEKELEE
Sbjct: 1  MQGGEDVSIEELANNLSTYKDQLHQVRQLLDDDPGNSEYIDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. NCBI nr
Match: gi|700196219|gb|KGN51396.1| (hypothetical protein Csa_5G526860 [Cucumis sativus])

HSP 1 Score: 89.0 bits (219), Expect = 6.6e-15
Identity = 44/48 (91.67%), Postives = 46/48 (95.83%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGEDVS+EELA NLSTYKDQL QVR+LLDDDPGNSEYIDMEKELEE
Sbjct: 1  MQGGEDVSIEELANNLSTYKDQLHQVRQLLDDDPGNSEYIDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. NCBI nr
Match: gi|359486247|ref|XP_002269518.2| (PREDICTED: survival of motor neuron-related-splicing factor 30 isoform X1 [Vitis vinifera])

HSP 1 Score: 83.2 bits (204), Expect = 3.6e-13
Identity = 40/48 (83.33%), Postives = 47/48 (97.92%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGE++S++ELA+NLSTYKDQLQQVR+LL DDPGNSEY+DMEKELEE
Sbjct: 1  MQGGEELSIDELASNLSTYKDQLQQVRKLLVDDPGNSEYVDMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. NCBI nr
Match: gi|743806793|ref|XP_010927814.1| (PREDICTED: survival of motor neuron-related-splicing factor 30 [Elaeis guineensis])

HSP 1 Score: 81.3 bits (199), Expect = 1.4e-12
Identity = 40/48 (83.33%), Postives = 45/48 (93.75%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGED+S+EELA NLSTYKDQL++VR+LL DDPGNSEY DMEKELEE
Sbjct: 1  MQGGEDLSIEELAANLSTYKDQLREVRKLLVDDPGNSEYADMEKELEE 48

[Close]

BLAST of CmaCh04G018980 vs. NCBI nr
Match: gi|1012004320|ref|XP_015940050.1| (PREDICTED: survival of motor neuron-related-splicing factor 30 [Arachis duranensis])

HSP 1 Score: 80.1 bits (196), Expect = 3.1e-12
Identity = 38/48 (79.17%), Postives = 45/48 (93.75%), Query Frame = 1


Query: 12 MQGGEDVSMEELATNLSTYKDQLQQVRELLDDDPGNSEYIDMEKELEE 60
          MQGGE+VS+EELA+NLSTYKDQL QVR+LL D+PGNSEY+DME+EL E
Sbjct: 1  MQGGEEVSIEELASNLSTYKDQLHQVRQLLKDEPGNSEYVDMERELNE 48

The following BLAST results are available for this feature:

BLAST of CmaCh04G018980 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmaCh04G018980 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0KUI2_CUCSA	4.6e-15	91.67	Uncharacterized protein OS=Cucumis sativus GN=Csa_5G526860 PE=4 SV=1	[more]
F6HK00_VITVI	2.5e-13	83.33	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_12s0035g01830 PE=4 SV=...	[more]
A0A0B0PS86_GOSAR	3.7e-12	71.70	Survival of motor neuron-related-splicing factor 30 OS=Gossypium arboreum GN=F38...	[more]
W1NYJ5_AMBTC	6.2e-12	79.17	Uncharacterized protein OS=Amborella trichopoda GN=AMTR_s00099p00125580 PE=4 SV=...	[more]
M0S0J8_MUSAM	1.4e-11	77.08	Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1	[more]

BLAST of CmaCh04G018980 vs. TAIR10


Match Name	E-value	Identity	Description
AT2G02570.1	4.7e-11	65.22	nucleic acid binding;RNA binding	[more]

BLAST of CmaCh04G018980 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449450113\|ref\|XP_004142808.1\|	6.6e-15	91.67	PREDICTED: survival of motor neuron-related-splicing factor 30 isoform X1 [Cucum...	[more]
gi\|700196219\|gb\|KGN51396.1\|	6.6e-15	91.67	hypothetical protein Csa_5G526860 [Cucumis sativus]	[more]
gi\|359486247\|ref\|XP_002269518.2\|	3.6e-13	83.33	PREDICTED: survival of motor neuron-related-splicing factor 30 isoform X1 [Vitis...	[more]
gi\|743806793\|ref\|XP_010927814.1\|	1.4e-12	83.33	PREDICTED: survival of motor neuron-related-splicing factor 30 [Elaeis guineensi...	[more]
gi\|1012004320\|ref\|XP_015940050.1\|	3.1e-12	79.17	PREDICTED: survival of motor neuron-related-splicing factor 30 [Arachis duranens...	[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:0010413	glucuronoxylan metabolic process
biological_process	GO:0006397	mRNA processing
biological_process	GO:0045492	xylan biosynthetic process
cellular_component	GO:0005737	cytoplasm
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003723	RNA binding

Relationships

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


Feature Name	Unique Name	Type
CmaCh04G018980.1	CmaCh04G018980.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima
Date Performed: 2017-05-20


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	unknown	Coil	Coil	coord: 20..40 scor

Synteny

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


Gene	Orthologue	Organism	Block
CmaCh04G018980	Cla001904	Watermelon (97103) v1	cmawmB733

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmaCh04G018980	Cucurbita pepo (Zucchini)	cmacpeB720
CmaCh04G018980	Cucurbita pepo (Zucchini)	cmacpeB725
CmaCh04G018980	Bottle gourd (USVL1VR-Ls)	cmalsiB635
CmaCh04G018980	Cucumber (Gy14) v2	cgybcmaB691
CmaCh04G018980	Melon (DHL92) v3.6.1	cmamedB730
CmaCh04G018980	Silver-seed gourd	carcmaB0395
CmaCh04G018980	Cucumber (Chinese Long) v3	cmacucB0903
CmaCh04G018980	Watermelon (97103) v2	cmawmbB726
CmaCh04G018980	Watermelon (97103) v2	cmawmbB734
CmaCh04G018980	Wax gourd	cmawgoB0913
CmaCh04G018980	Wax gourd	cmawgoB0876
CmaCh04G018980	Wax gourd	cmawgoB0904
CmaCh04G018980	Cucurbita moschata (Rifu)	cmacmoB728
CmaCh04G018980	Wild cucumber (PI 183967)	cmacpiB767
CmaCh04G018980	Cucumber (Chinese Long) v2	cmacuB760
CmaCh04G018980	Melon (DHL92) v3.5.1	cmameB646
CmaCh04G018980	Watermelon (Charleston Gray)	cmawcgB622
CmaCh04G018980	Watermelon (Charleston Gray)	cmawcgB628
CmaCh04G018980	Watermelon (97103) v1	cmawmB739
CmaCh04G018980	Watermelon (97103) v1	cmawmB745