Lag0039812 (gene) Sponge gourd (AG‐4) v1

Overview


Name	Lag0039812
Type	gene
Organism	Luffa acutangula (Sponge gourd (AG‐4) v1)
Description	60S ribosomal protein L3
Location	chr13: 169929 .. 170867 (-)
RNA-Seq Expression	Lag0039812
Synteny	Lag0039812

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.

ATGCAATTTGATACCAAAATTCCTGGTGAGTTTTATTGTATAGGAGGTGTGAGAAGATTCATCAGATGTGTTTTTGTTCTTGATCTAAACATTTAATGTTAAAGATTTCTAATTTCTTTGCAGGTCAGTTTTTAGTACACAATTAATAATTAATTTGGTGGTGATTTCTTCTCTGCAGTGAAGGCATTTCCTAGAGATGATCCATCAAAGCCTTGTAGGTTAACTGCTTTCCTTGGATACAAGGCTGGGATGACTCATATTGTCAGAGAAGTTGAAAAGCCTGGATCGAGTGAGTCTGGTTTAAAGTTATTTAAATCTAGTCTAATAAAAGGATAAATTAGGCAACAAATCAAATTTGCATGGCTTATTGTTCCTATATCCTAGATGGATTGGATTATTTATGGAATCTATAATATCATGACATGGAGAATTACTTGATGAATATTAAGGGCTGTTGTGTGGGTCCAAAAAAGGGTGTAGTCACATTGAGGCAATCACTGATTAAGCAGACATCTAGGGTGGCTATGGAGGAAATCAAATTGAATTTCATTGACACTTGGTCTAAGTTTGGGCATGGTAGGTTTCACACAACACAGGAGAAAGCCAAGTTTTATGGACGACTCAAGGCATAATTATACATCAATTTTGCCTGTCTTATTTATTTTCTCCATGTTTTAGTTTACTGTAGAATTTTGAAGAAGTTGCTAGTATTTTTACAGCATCTTAGCATTGCTCGGGATGTTGGTACTTTGATATGCTTGCACAGGTTCCATCTCAAATAAACATCGGCTTCTAGCATTTTTCATATGTACTGGGTATAATAAAATAGAAAACGCCAACGCCTCAACAATTCCAAAAATCCCGGATTTTGTAAGGTTGAGGAGTGGTCCACCAACAAAGCTTCTAGCCTTCTATGATGTTGTCACTCAAAACCAATAA

mRNA sequence

ATGCAATTTGATACCAAAATTCCTGTGAAGGCATTTCCTAGAGATGATCCATCAAAGCCTTGTAGGTTAACTGCTTTCCTTGGATACAAGGCTGGGATGACTCATATTGTCAGAGAAGTTGAAAAGCCTGGATCGAGTTCCATCTCAAATAAACATCGGCTTCTAGCATTTTTCATATGTACTGGGTATAATAAAATAGAAAACGCCAACGCCTCAACAATTCCAAAAATCCCGGATTTTGTAAGGTTGAGGAGTGGTCCACCAACAAAGCTTCTAGCCTTCTATGATGTTGTCACTCAAAACCAATAA

Coding sequence (CDS)

ATGCAATTTGATACCAAAATTCCTGTGAAGGCATTTCCTAGAGATGATCCATCAAAGCCTTGTAGGTTAACTGCTTTCCTTGGATACAAGGCTGGGATGACTCATATTGTCAGAGAAGTTGAAAAGCCTGGATCGAGTTCCATCTCAAATAAACATCGGCTTCTAGCATTTTTCATATGTACTGGGTATAATAAAATAGAAAACGCCAACGCCTCAACAATTCCAAAAATCCCGGATTTTGTAAGGTTGAGGAGTGGTCCACCAACAAAGCTTCTAGCCTTCTATGATGTTGTCACTCAAAACCAATAA

Protein sequence

MQFDTKIPVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSSISNKHRLLAFFICTGYNKIENANASTIPKIPDFVRLRSGPPTKLLAFYDVVTQNQ

Homology

[Close]

BLAST of Lag0039812 vs. NCBI nr
Match: GFY94699.1 (R-protein L3 B [Actinidia rufa])

HSP 1 Score: 84.0 bits (206), Expect = 8.4e-13
Identity = 37/41 (90.24%), Postives = 39/41 (95.12%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSSIS 50
          VKAFP+DDPSKPCRLTAFLGYKAGMTHIVREVEKPGSS  +
Sbjct: 29 VKAFPKDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSEFN 69

[Close]

BLAST of Lag0039812 vs. NCBI nr
Match: RZC88821.1 (hypothetical protein C5167_031192 [Papaver somniferum])

HSP 1 Score: 84.0 bits (206), Expect = 8.4e-13
Identity = 37/44 (84.09%), Postives = 40/44 (90.91%), Query Frame = 0


Query: 2  QFDTKIPVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
          +FD    VK+FP+DDPSKPCRLTAFLGYKAGMTHIVREVEKPGS
Sbjct: 32 KFDDVCAVKSFPKDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 75

[Close]

BLAST of Lag0039812 vs. NCBI nr
Match: RZC72189.1 (hypothetical protein C5167_035362 [Papaver somniferum])

HSP 1 Score: 84.0 bits (206), Expect = 8.4e-13
Identity = 37/44 (84.09%), Postives = 40/44 (90.91%), Query Frame = 0


Query: 2  QFDTKIPVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
          +FD    VK+FP+DDPSKPCRLTAFLGYKAGMTHIVREVEKPGS
Sbjct: 31 KFDDVCAVKSFPKDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 74

[Close]

BLAST of Lag0039812 vs. NCBI nr
Match: KAB1208548.1 (60S ribosomal protein L3 [Morella rubra])

HSP 1 Score: 83.6 bits (205), Expect = 1.1e-12
Identity = 38/43 (88.37%), Postives = 39/43 (90.70%), Query Frame = 0


Query: 3   FDTKIPVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
           F+    VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS
Sbjct: 91  FNFYASVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 133

[Close]

BLAST of Lag0039812 vs. NCBI nr
Match: RZC72298.1 (hypothetical protein C5167_035501 [Papaver somniferum])

HSP 1 Score: 83.6 bits (205), Expect = 1.1e-12
Identity = 37/45 (82.22%), Postives = 40/45 (88.89%), Query Frame = 0


Query: 1  MQFDTKIPVKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
          +QFD    VK+FP+DD SKPCRLTAFLGYKAGMTHIVREVEKPGS
Sbjct: 53 LQFDDVCAVKSFPKDDSSKPCRLTAFLGYKAGMTHIVREVEKPGS 97

[Close]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot
Match: P22738 (60S ribosomal protein L3-2 OS=Arabidopsis thaliana OX=3702 GN=ARP2 PE=2 SV=4)

HSP 1 Score: 78.6 bits (192), Expect = 4.6e-14
Identity = 33/37 (89.19%), Postives = 37/37 (100.00%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
          VKAFP+DDP+KPCRLT+FLGYKAGMTHIVR+VEKPGS
Sbjct: 29 VKAFPKDDPTKPCRLTSFLGYKAGMTHIVRDVEKPGS 65

[Close]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot
Match: P17094 (60S ribosomal protein L3-1 OS=Arabidopsis thaliana OX=3702 GN=ARP1 PE=1 SV=5)

HSP 1 Score: 74.3 bits (181), Expect = 8.8e-13
Identity = 31/37 (83.78%), Postives = 35/37 (94.59%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGS 46
          VKAFP+DD +KPC+ TAF+GYKAGMTHIVREVEKPGS
Sbjct: 29 VKAFPKDDQTKPCKFTAFMGYKAGMTHIVREVEKPGS 65

[Close]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot
Match: P39023 (60S ribosomal protein L3 OS=Homo sapiens OX=9606 GN=RPL3 PE=1 SV=2)

HSP 1 Score: 73.9 bits (180), Expect = 1.1e-12
Identity = 39/73 (53.42%), Postives = 44/73 (60.27%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSSISNKHRLLAFFICTGYNKIEN 68
          VK+FP+DDPSKP  LTAFLGYKAGMTHIVREV++PGS                  NK E 
Sbjct: 29 VKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPGSK----------------VNKKEV 85

Query: 69 ANASTIPKIPDFV 82
            A TI + P  V
Sbjct: 89 VEAVTIVETPPMV 85

[Close]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot
Match: P21531 (60S ribosomal protein L3 OS=Rattus norvegicus OX=10116 GN=Rpl3 PE=1 SV=3)

HSP 1 Score: 73.9 bits (180), Expect = 1.1e-12
Identity = 39/73 (53.42%), Postives = 44/73 (60.27%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSSISNKHRLLAFFICTGYNKIEN 68
          VK+FP+DDPSKP  LTAFLGYKAGMTHIVREV++PGS                  NK E 
Sbjct: 29 VKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPGSK----------------VNKKEV 85

Query: 69 ANASTIPKIPDFV 82
            A TI + P  V
Sbjct: 89 VEAVTIVETPPMV 85

[Close]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot
Match: Q4R5Q0 (60S ribosomal protein L3 OS=Macaca fascicularis OX=9541 GN=RPL3 PE=2 SV=3)

HSP 1 Score: 73.6 bits (179), Expect = 1.5e-12
Identity = 34/51 (66.67%), Postives = 42/51 (82.35%), Query Frame = 0


Query: 9  VKAFPRDDPSKPCRLTAFLGYKAGMTHIVREVEKPGSSSISNKHRLLAFFI 60
          VK+FP+DDPSKP  LTAFLGYKAGMTHIVREV++PG S ++ K  ++A  I
Sbjct: 29 VKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPG-SKVNKKEVVVAVTI 78

The following BLAST results are available for this feature:

BLAST of Lag0039812 vs. NCBI nr


Match Name	E-value	Identity	Description
GFY94699.1	8.4e-13	90.24	R-protein L3 B [Actinidia rufa]	[more]
RZC88821.1	8.4e-13	84.09	hypothetical protein C5167_031192 [Papaver somniferum]	[more]
RZC72189.1	8.4e-13	84.09	hypothetical protein C5167_035362 [Papaver somniferum]	[more]
KAB1208548.1	1.1e-12	88.37	60S ribosomal protein L3 [Morella rubra]	[more]
RZC72298.1	1.1e-12	82.22	hypothetical protein C5167_035501 [Papaver somniferum]	[more]

BLAST of Lag0039812 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
P22738	4.6e-14	89.19	60S ribosomal protein L3-2 OS=Arabidopsis thaliana OX=3702 GN=ARP2 PE=2 SV=4	[more]
P17094	8.8e-13	83.78	60S ribosomal protein L3-1 OS=Arabidopsis thaliana OX=3702 GN=ARP1 PE=1 SV=5	[more]
P39023	1.1e-12	53.42	60S ribosomal protein L3 OS=Homo sapiens OX=9606 GN=RPL3 PE=1 SV=2	[more]
P21531	1.1e-12	53.42	60S ribosomal protein L3 OS=Rattus norvegicus OX=10116 GN=Rpl3 PE=1 SV=3	[more]
Q4R5Q0	1.5e-12	66.67	60S ribosomal protein L3 OS=Macaca fascicularis OX=9541 GN=RPL3 PE=2 SV=3	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (AG-4) v1
Date Performed: 2022-08-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR044892	Ribosomal protein L3, domain 3, archaeal type superfamily	GENE3D	4.10.960.10	Ribosomal protein L3, domain 3	coord: 8..23 e-value: 5.1E-14 score: 53.8
None	No IPR available	GENE3D	2.40.30.10	Translation factors	coord: 24..47 e-value: 5.1E-14 score: 53.8
None	No IPR available	PANTHER	PTHR11363:SF13	60S RIBOSOMAL PROTEIN L3-1	coord: 8..46
IPR000597	Ribosomal protein L3	PFAM	PF00297	Ribosomal_L3	coord: 8..47 e-value: 1.3E-13 score: 50.7
IPR045077	Ribosomal protein L3, archaeal/eukaryotic type	PANTHER	PTHR11363	60S RIBOSOMAL PROTEIN L3-RELATED	coord: 8..46
IPR009000	Translation protein, beta-barrel domain superfamily	SUPERFAMILY	50447	Translation proteins	coord: 9..48

Relationships

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


Feature Name	Unique Name	Type
Lag0039812.1	Lag0039812.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0000027	ribosomal large subunit assembly
biological_process	GO:0006413	translational initiation
biological_process	GO:0006412	translation
cellular_component	GO:0022625	cytosolic large ribosomal subunit
cellular_component	GO:0005840	ribosome
molecular_function	GO:0003735	structural constituent of ribosome
molecular_function	GO:0003743	translation initiation factor activity