MELO3C004713 (gene) Melon (DHL92) v3.5.1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	MELO3C004713
Type	gene
Organism	Cucumis melo (Melon (DHL92) v3.5.1)
Description	Ribosomal protein
Location	chr12 : 11808160 .. 11811217 (+)

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.

CCCTAATCTGTTTCGTTTTCTTTCTTCTCGGTATGTCGTCTCCTTTGCTCATTTGTTTTTCTTCATAATCTTTAATCGCATTACCATTTTCCATTGTCATTTGCTTTTCTTTGAAGTTTCTTACGGTTTCTCAACTCTGTTTGTGTACAGGACTGAAGGGTATACTGTCTTTGCGAAGGCGAAGATTCGAAAATGAGGTATTTTTTTCAGCATTCTCTTTGTTTTTCATAATTCTTTTGGTTTCAGATTCATGTTAGCATTTAGGTTGTACTGGTTCCGATTCTTGCACTCTTTTAGTTTCTTTTTTTCGATTCTACTGTTATATGAGTTTGATGGTTGCTAGAATAATGGGTTTTGTATAATTTAATCTAATCTTTTGAGTAATGTGAACTTTTGGAAAGGATGGATGATCTTTCGGAAGTAGGCCTCTTTTCTTTGATTCTACTGTTTTGAGTTTTATGGTTGCTAGAATAGTGGGTTGGTTCTGAATAATCTAATCTACTATTCGAGTAATGTAAACTTTTTAAGACAGTGGATTGATGATCTTTAGGGAGTAGGCTTTGTTTCTTCAATTCTACTGTTTTGAGTCTTATGGTTGCTAGGATAATGGATTCTGTATAATTTAATCTAATGTTCGAGTAATGTGAACTTTTGAGAAAGTGGATTGATAATCTTTTGGAAGTAGGCTTCTATTATTTGATTCCACCGATTTGAGTTTTATGGTCGCTAGAACAATGGGTTCGAAATGATTTTATCTAATGTTGGAGTAATGTGAACTTTTTGAGAGAGTGGATCGATAATCTTTAGGAAGTAGGCTTGTATTCCTGTGATTCTCCATGAAGTTTCTGCATGTGGTCGTTTTGGTTATACCCAGTTTTTTAAAGAGCTGTCTCAGGCTCAAGGCTTAGGTTTGGCGAAAGGAGACCTTTGTGCCTTTTGGCTCAAAGACCTGTGTCTTGGAGCTTTTTCTTTATTTTTAAGAAATGATCATAATTGGAAGTCTTTTCTTTTCTTTTTTTTTTTTTTTACTACTATATTTCCACTTCAACTATACTTGCTCTCCTTTGTAAAATACTTTTATCTAAAGTGCACCTCACGAATTTTTTTTTTTTTAGCGCTTTGTGCTTAAGCCTAAGATTATTGTGCTTTATTGTGGCCATACCTTGTGCGTAGTCATATTGTCTTTTGTTTTCTCTATACAGTAAGCTTCAGAGTGATGCACTGAGAGAAGCTATCTCATCTATTTTCACTGATAGCAATGAGAAAAAGAGAAAGTTTACTGAGACCATTGAGCTTCAGATCGGACTGAAGAACTATGATCCTCAGAAGGACAAGCGTTTCAGTGGTTCTGTGAAGTTGCCACATATTCCCCGTCCCAAGATGAAGATATGCATGCTTGGGGATGCCTCACACATTGAAGAGGTAATGTCACATAGCTCTAGGTACATGATCATGTTACTGCTGACCCTTAGATATTTTGCTTCGTATATCTTACTTTTGCTTATTGTAAGTTATAGAAATTTATTTTATTATGCTCGATATTTCTAAACTACATTTGTTTTCTTATAGCCAAATCTTTTGTTGGATTCTAAATATAATTTAAGAAGCATGGCTGCTTGTCTGCGTCCAACACGTTCTGGACAATTTGACACTTGGTGGAGACCTATCGGACACATGTTAGTGCAAAAAATGTGTTAGACATGCATAGAACACTAATTGAGTAGACTATGAAGACACATATATGATAGTAATAATAACTTTTAAGTGTAGAATACACAAAGATAAGTCTTTTAAGCATATAAATGCATCAACTCATTTACTATGAATTATATTTTACTATAAAAATGATATATTTTTCAAAAATGAATATTTAAAAAATGTGTCCTTGCCGTGTCATGTCCTCGAATTTTAAAACATGGTATGTTGCTGTTTCCATGTCATGTCGTATCCATGTACATGCTTCTTAGAATATAGCCTTGTTTTTAAATTCCTACAGTTAAAGGAATTTTTGTGGTGTGTATAAGCTAAATATTAATGTTTCTGATGATTGTTTTGGAGATGAACGATTGGTCTAGAATATATGGATGTGGAAGGCTCGAAAAAGATTGGTTTAAGGATATGCCTTTTTTATCTGTTACTTGCACTTCTGGGAGCTCAGACGATGTGTCCTAATGGGGTTTCATGAAAATATATTTCAGGCTGAGAAGATTGGTCTAGAATATATGGATGTGGAAGGCTTGAAAAAGCTAAATAAGAACAAGAAATTGGTGAAGAAACTTGCCAAAAAATACCATGCCTTTTTGGCATCAGAATCTATAATCAAGCAGATTCCTCGTCTTCTAGGCCCCGGTCTCAACAAAGCAGGTTAGAATATTTAGTGGAGATGTGTTTTTCTTCACAAAATATGATCAACTGATTAACTCCCTGGCGAAGTGATCCTTGTTATGTTCAACTTTCGATCATATTTTTGGTGTTTCAGGAAAGTTCCCAACATTGGTGACACACCAAGAAACGCTTGAATCTAAAGTTAATGAGACCAAGGCGACGGTCAAGTTTCAACTGAAGAAGGTCCTTTGTATGGGAGTCGCTGTTGGAAACGTTTCCATGGATGAGAAGCAAGTCTTTCAAAATGTTCAAATGAGCGTCAATTTCTTGGTTTCTTTGTTGAAAAAGAACTGGCAGAATGTAAGTTTGTCTGTGTATCTCCTAACTCAACTCCATCTGTTTCATCATTTTGCTTATGGAGATTTGAATACGGTTTCTTGCAGGTTAGGTGCCTGTACCTGAAAAGCACAATGGGGAAGTCATATCGGGTTTTCTAAGCACTGTTAGCAATGTAGTCAGTCTTGTGTGTTCGATCTTTTTATTATCGACGTTATTTCTCGAAGAGCAGTTTTGTGAAATGAGCGTTTTTGAATGATTCTTGAACAAAGAAACAGGAATGTTTTCTTCTCTTTTAAAGTGACAATTGATAATGAAGTTTTTAATTCCCACCCAACCTCACCTATTATGAACTTGTGTTTGCATTTACTTTGATCGTACTGTAGTTTTCTACTTC

mRNA sequence

CCCTAATCTGTTTCGTTTTCTTTCTTCTCGGACTGAAGGGTATACTGTCTTTGCGAAGGCGAAGATTCGAAAATGAGTAAGCTTCAGAGTGATGCACTGAGAGAAGCTATCTCATCTATTTTCACTGATAGCAATGAGAAAAAGAGAAAGTTTACTGAGACCATTGAGCTTCAGATCGGACTGAAGAACTATGATCCTCAGAAGGACAAGCGTTTCAGTGGTTCTGTGAAGTTGCCACATATTCCCCGTCCCAAGATGAAGATATGCATGCTTGGGGATGCCTCACACATTGAAGAGGCTGAGAAGATTGGTCTAGAATATATGGATGTGGAAGGCTTGAAAAAGCTAAATAAGAACAAGAAATTGGTGAAGAAACTTGCCAAAAAATACCATGCCTTTTTGGCATCAGAATCTATAATCAAGCAGATTCCTCGTCTTCTAGGCCCCGGTCTCAACAAAGCAGGAAAGTTCCCAACATTGGTGACACACCAAGAAACGCTTGAATCTAAAGTTAATGAGACCAAGGCGACGGTCAAGTTTCAACTGAAGAAGGTCCTTTGTATGGGAGTCGCTGTTGGAAACGTTTCCATGGATGAGAAGCAAGTCTTTCAAAATGTTCAAATGAGCGTCAATTTCTTGGTTTCTTTGTTGAAAAAGAACTGGCAGAATGTTAGGTGCCTGTACCTGAAAAGCACAATGGGGAAGTCATATCGGGTTTTCTAAGCACTGTTAGCAATGTAGTCAGTCTTGTGTGTTCGATCTTTTTATTATCGACGTTATTTCTCGAAGAGCAGTTTTGTGAAATGAGCGTTTTTGAATGATTCTTGAACAAAGAAACAGGAATGTTTTCTTCTCTTTTAAAGTGACAATTGATAATGAAGTTTTTAATTCCCACCCAACCTCACCTATTATGAACTTGTGTTTGCATTTACTTTGATCGTACTGTAGTTTTCTACTTC

Coding sequence (CDS)

ATGAGTAAGCTTCAGAGTGATGCACTGAGAGAAGCTATCTCATCTATTTTCACTGATAGCAATGAGAAAAAGAGAAAGTTTACTGAGACCATTGAGCTTCAGATCGGACTGAAGAACTATGATCCTCAGAAGGACAAGCGTTTCAGTGGTTCTGTGAAGTTGCCACATATTCCCCGTCCCAAGATGAAGATATGCATGCTTGGGGATGCCTCACACATTGAAGAGGCTGAGAAGATTGGTCTAGAATATATGGATGTGGAAGGCTTGAAAAAGCTAAATAAGAACAAGAAATTGGTGAAGAAACTTGCCAAAAAATACCATGCCTTTTTGGCATCAGAATCTATAATCAAGCAGATTCCTCGTCTTCTAGGCCCCGGTCTCAACAAAGCAGGAAAGTTCCCAACATTGGTGACACACCAAGAAACGCTTGAATCTAAAGTTAATGAGACCAAGGCGACGGTCAAGTTTCAACTGAAGAAGGTCCTTTGTATGGGAGTCGCTGTTGGAAACGTTTCCATGGATGAGAAGCAAGTCTTTCAAAATGTTCAAATGAGCGTCAATTTCTTGGTTTCTTTGTTGAAAAAGAACTGGCAGAATGTTAGGTGCCTGTACCTGAAAAGCACAATGGGGAAGTCATATCGGGTTTTCTAA

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR002143	Ribosomal_L1
IPR016094	Ribosomal protein L1, 2-layer alpha/beta-sandwich
IPR016095	Ribosomal_L1_3-a/b-sand
IPR023673	Ribosomal_L1_CS
IPR023674	Ribosomal_L1-like

Vocabulary: **Molecular Function**
Term	Definition
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome

Vocabulary: **Biological Process**
Term	Definition
GO:0006412	translation

Vocabulary: **Cellular Component**
Term	Definition
GO:0015934	large ribosomal subunit

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0042254	ribosome biogenesis
biological_process	GO:0006412	translation
biological_process	GO:0022900	electron transport chain
biological_process	GO:0008150	biological_process
biological_process	GO:0000470	maturation of LSU-rRNA
cellular_component	GO:0015934	large ribosomal subunit
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0022625	cytosolic large ribosomal subunit
molecular_function	GO:0003723	RNA binding
molecular_function	GO:0003735	structural constituent of ribosome
molecular_function	GO:0051537	2 iron, 2 sulfur cluster binding
molecular_function	GO:0009055	electron carrier activity

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
MU54399	melon EST collection version 4.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
MELO3C004713T2	MELO3C004713T2	mRNA
MELO3C004713T1	MELO3C004713T1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
MU54399	MU54399	transcribed_cluster

InterPro

Analysis Name: InterPro Annotations of melon
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR002143	Ribosomal protein L1	PIR	PIRSF002155	RPL1p_RPL1a_RPL10e_RPL1o	coord: 1..216 score: 8.1
IPR016094	Ribosomal protein L1, 2-layer alpha/beta-sandwich	GENE3D	G3DSA:3.30.190.20		coord: 152..215 score: 5.8E-50coord: 6..60 score: 5.8
IPR016095	Ribosomal protein L1, 3-layer alpha/beta-sandwich	GENE3D	G3DSA:3.40.50.790		coord: 62..151 score: 6.3
IPR023673	Ribosomal protein L1, conserved site	PROSITE	PS01199	RIBOSOMAL_L1	coord: 116..135 scor
IPR023674	Ribosomal protein L1-like	unknown	SSF56808	Ribosomal protein L1	coord: 21..216 score: 1.7
None	No IPR available	PANTHER	PTHR23105	RIBOSOMAL PROTEIN L7AE FAMILY MEMBER	coord: 1..216 score: 4.8E
None	No IPR available	PANTHER	PTHR23105:SF55	SUBFAMILY NOT NAMED	coord: 1..216 score: 4.8E

Synteny

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


Gene	Orthologue	Organism	Block
MELO3C004713	Csa1G163140	Cucumber (Chinese Long) v2	cumeB015
MELO3C004713	ClCG01G012240	Watermelon (Charleston Gray)	mewcgB141
MELO3C004713	Cla97C01G011580	Watermelon (97103) v2	mewmbB143
MELO3C004713	Bhi08G000049	Wax gourd	mewgoB174
MELO3C004713	CSPI01G14690	Wild cucumber (PI 183967)	cpimeB011
MELO3C004713	Cucsa.199730	Cucumber (Gy14) v1	cgymeB365
MELO3C004713	CmaCh13G003060	Cucurbita maxima (Rimu)	cmameB204
MELO3C004713	CmaCh18G006570	Cucurbita maxima (Rimu)	cmameB368
MELO3C004713	CmoCh18G006640	Cucurbita moschata (Rifu)	cmomeB353
MELO3C004713	Cp4.1LG09g05610	Cucurbita pepo (Zucchini)	cpemeB028
MELO3C004713	CsGy1G014580	Cucumber (Gy14) v2	cgybmeB010
MELO3C004713	Carg26274	Silver-seed gourd	carmeB0000
MELO3C004713	CsaV3_1G014820	Cucumber (Chinese Long) v3	cucmeB010

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
MELO3C004713	Bottle gourd (USVL1VR-Ls)	lsimeB244