Lag0027140.1 (mRNA) Sponge gourd (AG‐4) v1

Overview


Name	Lag0027140.1
Type	mRNA
Organism	Luffa acutangula (Sponge gourd (AG‐4) v1)
Description	RRM domain-containing protein
Location	chr10: 45361146 .. 45362815 (+)
Sequence length	444
RNA-Seq Expression	Lag0027140.1
Synteny	Lag0027140.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGAAAACTGTTCTATCTCGGAGAAGAATTCTCTCAGTTTCAAGGTTTTCTTCGCAATCCAAAGCTGCAGTTTCCACGGCCTGTTCTTTAACCATACTTTCAATTTTAGTTCTAACGATGATAACCAGAAGCCTGCGCCGATTCCTTCAACGATCCTTTTCGTCTCCGGTAATCATTTCATCGTTCTTTCTGATTCTTCGTTTTTGTATTCCATTTTCCTGTGCTGTCTGATTACACATTTTCATTTCCGTATGCATATTAGTGATTGGGTATGAATACAGATTACATGTGTAGCTCACAAACCAAAGATGTTTAGAGGTTTTCTCATACTCCCATCGATCCGATTGTTCAAATGTTAGAATAAATTTTTATGGGCTATTTTCTGTATGTTTGAAAAGACAAGAAGATTTTCTTGTTATCAGGCTGTACTCTGCCCACTGCCTGGTTATAGGGTTCTGCCATTGTTTAACTGCATATTCATGGGATTGTTTGATGTTGCAGGGCAGAATGAGGGAAGTACATCTGAAAAACTTGGGGAAGCATTCTCCAAATTTGGTGAAGTTGTTCAGGGTCATCTCATTTTTTCTGTTGCTTTTTGCTTATTCCTTCTTTCATTTGCTTTTTCTTTCCCATCTTGCATTGCTGGCTTATTATTTGTACTTTGCATTACCTTCAAATCCTTGGTGGGTGAGATCGATAATGTTATATTTTAAGATATGCTACCTTAGAAGAAGCAGAGAAAGGAATGAAAGGGATGGATGCACAGGTTCATTACTCCACCTTTCAATTACTGTTATGTTTTCTTTTATTGAACATTATAAATGCTTACTAATTTGGAAGAGAAGAAGAGGAAGAGGCCATGGCAGAGTAAAAGGATCATCGAGTTCGATTTTTGAAAGTCCGTTGAACCTTTTGGATGGATGAAATATGAATAGGAAGGAAAGGATTCAGTTACTTATAATCCTGAAATTGAAACTTCAGATTAAAATTCATTCTATCATTTGATTATAACTCATGTCTCATCGTATGCTAATTTGTGCTCTATATGATATATACACGCGCATATATATATATATATATATATATATATATATATATATATATTTTTTTTTTGATATATGTTAGTGTCCAAGCCAGCTTACACGCATCTCGACTAATCTCACGGGATAACCGTCTGACCCTACTACATTTGGTTGCCAAGGAAACTAGTAGGATATTAAATATCCTAGGTAGGTGGCCACCATGGATTGAACCCATTCCCTCTAAGCCCTTTATTTTTTCTATGGTCTTTATTGACCATTAGGGCAAACCCATGATGGTTTATATACATGTACATATAGATGAAGAATGTGGAATTCAAACTTTGAACAAGATATTAGCCATAAGGATGCCTTTATTGAATGTCTGCCACCTTGAACCCTGTGGGCTTGACAGAGGGTTTATGTCATGGTTTGTATTTAATCTGTTGACCAGGTTGTCTCAAGAAAAAGAGTGGGTTCCTCACCCTCAGCTATGTTATGTATTCTTTTCTTGTGGGGGAAAATAATCTGAAACTCTTATCTGTTTTTTGGTTGGTGCAGTTTTTTGATGGGTGGGTGATATTTGCAGGATATGCAAGGCCTAGAAGTCCCCAAGGGTATACATCTTCTCCAAATAAACCAATCTGCTAG

mRNA sequence

ATGAAAACTGTTCTATCTCGGAGAAGAATTCTCTCAGTTTCAAGGTTTTCTTCGCAATCCAAAGCTGCAGTTTCCACGGCCTGTTCTTTAACCATACTTTCAATTTTAGTTCTAACGATGATAACCAGAAGCCTGCGCCGATTCCTTCAACGATCCTTTTCGTCTCCGGCTGTACTCTGCCCACTGCCTGGTTATAGGGTTCTGCCATTGTTTAACTGCATATTCATGGGATTGTTTGATGTTGCAGGGCAGAATGAGGGAAGTACATCTGAAAAACTTGGGGAAGCATTCTCCAAATTTGGTGAAGTTGTTCAGGAAGAAGCAGAGAAAGGAATGAAAGGGATGGATGCACAGTTTTTTGATGGGTGGGTGATATTTGCAGGATATGCAAGGCCTAGAAGTCCCCAAGGGTATACATCTTCTCCAAATAAACCAATCTGCTAG

Coding sequence (CDS)

ATGAAAACTGTTCTATCTCGGAGAAGAATTCTCTCAGTTTCAAGGTTTTCTTCGCAATCCAAAGCTGCAGTTTCCACGGCCTGTTCTTTAACCATACTTTCAATTTTAGTTCTAACGATGATAACCAGAAGCCTGCGCCGATTCCTTCAACGATCCTTTTCGTCTCCGGCTGTACTCTGCCCACTGCCTGGTTATAGGGTTCTGCCATTGTTTAACTGCATATTCATGGGATTGTTTGATGTTGCAGGGCAGAATGAGGGAAGTACATCTGAAAAACTTGGGGAAGCATTCTCCAAATTTGGTGAAGTTGTTCAGGAAGAAGCAGAGAAAGGAATGAAAGGGATGGATGCACAGTTTTTTGATGGGTGGGTGATATTTGCAGGATATGCAAGGCCTAGAAGTCCCCAAGGGTATACATCTTCTCCAAATAAACCAATCTGCTAG

Protein sequence

MKTVLSRRRILSVSRFSSQSKAAVSTACSLTILSILVLTMITRSLRRFLQRSFSSPAVLCPLPGYRVLPLFNCIFMGLFDVAGQNEGSTSEKLGEAFSKFGEVVQEEAEKGMKGMDAQFFDGWVIFAGYARPRSPQGYTSSPNKPIC

Homology

[Close]

BLAST of Lag0027140.1 vs. NCBI nr
Match: XP_011624062.1 (glycine-rich RNA-binding protein 3, mitochondrial-like [Amborella trichopoda])

HSP 1 Score: 78.2 bits (191), Expect = 6.7e-11
Identity = 56/128 (43.75%), Postives = 64/128 (50.00%), Query Frame = 0


Query: 45  LRRFLQRS---FSSPAVLCPLPGYRVLPLFNCIFMGLFDVAGQNEGSTSEKLGEAFSKFG 104
           +RR L  S   FSSP    P P    +P        LF V+G N+ +TSEKL EAF KFG
Sbjct: 12  IRRLLSSSPFPFSSPVSATP-PNPPAVP-----STSLF-VSGLNKRTTSEKLREAFLKFG 71

Query: 105 EVVQ-----------------------EEAEKGMKGMDAQFFDGWVIFAGYARPRSPQGY 147
           EVVQ                       EEAE G+KGMD QF DGWVIFA YARP++P   
Sbjct: 72  EVVQARVVTDRVSGYSKGFGFVRYATLEEAEAGIKGMDGQFLDGWVIFAEYARPKTPGAS 131

[Close]

BLAST of Lag0027140.1 vs. NCBI nr
Match: XP_042455208.1 (organelle RRM domain-containing protein 2, mitochondrial-like isoform X2 [Zingiber officinale])

HSP 1 Score: 75.5 bits (184), Expect = 4.3e-10
Identity = 40/71 (56.34%), Postives = 49/71 (69.01%), Query Frame = 0


Query: 81  VAGQNEGSTSEKLGEAFSKFGEVVQ-----EEAEKGMKGMDAQFFDGWVIFAGYARPR-S 140
           V+G ++ +TSE L EAFSKFG+VV      EEA +G+KGMD +F DGWVIFA YARPR  
Sbjct: 37  VSGLSKRTTSEGLREAFSKFGQVVYGYATLEEAAEGIKGMDGKFLDGWVIFAEYARPRPP 96

Query: 141 PQGYTSSPNKP 146
           P G   +P  P
Sbjct: 97  PSGQARTPTSP 107

[Close]

BLAST of Lag0027140.1 vs. NCBI nr
Match: XP_042462953.1 (organelle RRM domain-containing protein 2, mitochondrial-like isoform X2 [Zingiber officinale])

HSP 1 Score: 75.1 bits (183), Expect = 5.6e-10
Identity = 40/71 (56.34%), Postives = 49/71 (69.01%), Query Frame = 0


Query: 81  VAGQNEGSTSEKLGEAFSKFGEVVQ-----EEAEKGMKGMDAQFFDGWVIFAGYARPR-S 140
           V+G ++ +TSE L EAFSKFG+VV      EEA +G+KGMD +F DGWVIFA YARPR  
Sbjct: 37  VSGLSKRTTSEGLREAFSKFGQVVYGYATLEEAAQGIKGMDGKFLDGWVIFAEYARPRPP 96

Query: 141 PQGYTSSPNKP 146
           P G   +P  P
Sbjct: 97  PSGQARTPTAP 107

[Close]

BLAST of Lag0027140.1 vs. NCBI nr
Match: KAG0451244.1 (hypothetical protein HPP92_026544 [Vanilla planifolia])

HSP 1 Score: 75.1 bits (183), Expect = 5.6e-10
Identity = 35/53 (66.04%), Postives = 42/53 (79.25%), Query Frame = 0


Query: 83  GQNEGSTSEKLGEAFSKFGEVVQEEAEKGMKGMDAQFFDGWVIFAGYARPRSP 136
           G ++ +TSE L EAFSKFGEVV + A +G+KGMD +F DGWVIFA YARPR P
Sbjct: 13  GLSKRTTSEGLREAFSKFGEVVNDAAAEGIKGMDGKFLDGWVIFAEYARPREP 65

[Close]

BLAST of Lag0027140.1 vs. NCBI nr
Match: KAG9444964.1 (hypothetical protein H6P81_016304 [Aristolochia fimbriata])

HSP 1 Score: 72.8 bits (177), Expect = 2.8e-09
Identity = 38/79 (48.10%), Postives = 49/79 (62.03%), Query Frame = 0


Query: 81  VAGQNEGSTSEKLGEAFSKFGEVVQ-----------------------EEAEKGMKGMDA 137
           V+G N+ +TS+KL EAFSKFGEV+                        ++AE+G+KGMD 
Sbjct: 41  VSGLNKQTTSDKLKEAFSKFGEVISATVAKDHVSGYSKGFGFVRHATIKDAEEGIKGMDG 100

[Close]

BLAST of Lag0027140.1 vs. ExPASy Swiss-Prot
Match: Q9FIU6 (Organelle RRM domain-containing protein 2, mitochondrial OS=Arabidopsis thaliana OX=3702 GN=ORRM2 PE=1 SV=1)

HSP 1 Score: 47.4 bits (111), Expect = 1.7e-04
Identity = 23/43 (53.49%), Postives = 27/43 (62.79%), Query Frame = 0


Query: 106 EEAEKGMKGMDAQFFDGWVIFAGYARPR------SPQGYTSSP 143
           E++ KG+ GMD +F DGWVIFA YARPR       PQ   S P
Sbjct: 108 EDSAKGIAGMDGKFLDGWVIFAEYARPREQSQSYQPQNNMSRP 150

The following BLAST results are available for this feature:

BLAST of Lag0027140.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_011624062.1	6.7e-11	43.75	glycine-rich RNA-binding protein 3, mitochondrial-like [Amborella trichopoda]	[more]
XP_042455208.1	4.3e-10	56.34	organelle RRM domain-containing protein 2, mitochondrial-like isoform X2 [Zingib...	[more]
XP_042462953.1	5.6e-10	56.34	organelle RRM domain-containing protein 2, mitochondrial-like isoform X2 [Zingib...	[more]
KAG0451244.1	5.6e-10	66.04	hypothetical protein HPP92_026544 [Vanilla planifolia]	[more]
KAG9444964.1	2.8e-09	48.10	hypothetical protein H6P81_016304 [Aristolochia fimbriata]	[more]

BLAST of Lag0027140.1 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q9FIU6	1.7e-04	53.49	Organelle RRM domain-containing protein 2, mitochondrial OS=Arabidopsis thaliana...	[more]

InterPro

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

Position :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR48029:SF5	ORGANELLE RRM DOMAIN-CONTAINING PROTEIN 2, MITOCHONDRIAL-LIKE	coord: 106..140
None	No IPR available	PANTHER	PTHR48029	NUCLEOLAR PROTEIN 8	coord: 106..140
IPR035979	RNA-binding domain superfamily	SUPERFAMILY	54928	RNA-binding domain, RBD	coord: 86..133

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Lag0027140	Lag0027140	gene

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


Feature Name	Unique Name	Type
Lag0027140.1.exon1	Lag0027140.1.exon1	exon
Lag0027140.1.exon2	Lag0027140.1.exon2	exon
Lag0027140.1.exon3	Lag0027140.1.exon3	exon
Lag0027140.1.exon4	Lag0027140.1.exon4	exon

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


Feature Name	Unique Name	Type
cds.Lag0027140.1	cds.Lag0027140.1	CDS
cds.Lag0027140.1	cds.Lag0027140.1_2	CDS
cds.Lag0027140.1	cds.Lag0027140.1_3	CDS
cds.Lag0027140.1	cds.Lag0027140.1_4	CDS

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Lag0027140.1	Lag0027140.1-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
molecular_function	GO:0003676	nucleic acid binding