Lcy03g019270.1 (mRNA) Sponge gourd (P93075) v1

Overview


Name	Lcy03g019270.1
Type	mRNA
Organism	Luffa cylindrica cv. P93075 (Sponge gourd (P93075) v1)
Description	RNase H domain-containing protein
Location	Chr03: 52832831 .. 52833404 (+)
Sequence length	477
RNA-Seq Expression	Lcy03g019270.1
Synteny	Lcy03g019270.1

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.

ATGGTCCATCACCAGTTAATTCCCAGTATCGAAGAACGATGTGAGTGGATTCATGCATATCTTACTGAGTTTCGAGAGGCCAATGGGGTTCGTGCTCCTTCTCCGTTGACTGAAGAGCGATATAAAGATTTGCTTCAAAATGGGGAGGATATCATTATGCATACAGATGCTGCATTGGATGTATTAAACCAAAAATCTGGTTTCGGGATCATCCTTTCGTGATAAGCAAGGTGTCTTGAAAGCTGGATTAGCTTCGCCATCAAAAATATGTAATTCTCCGTTATGTGTTGAGGCAGTAGCTGTACTAGAAGGGTTGCGGTTGGCACGAAGACTGGACGTGGATTGTGTGACGGTCATGTCGGATTCCCTTGTGCTCGTCAAAGCAATTCGGGGAAGTGATCTAGTAGACTCGAGTATCTTGTCCATTTTGTGGGATATTCGTACTCTACTGACTTCGTTCCTTAGGATTAATTTTGTGCATGTAAATCATCAGTTCAATAGGTCTGCCCATGATTTGGCCCAAGTAGACCTTAATTCTAGTCCTCAGGAGTGGACTACCAACTTTCCTGGTTAA

mRNA sequence

ATGGTCCATCACCAGTTAATTCCCAGTATCGAAGAACGATGTGAGTGGATTCATGCATATCTTACTGAGTTTCGAGAGGCCAATGGGGTTCGTGCTCCTTCTCCGTTGACTGAAGAGCGATATAAAGATTTGCTTCAAAATGGGGAGGATATCATTATGCATACAGATGCTGCATTGGATGTATTAAACCAAAAATCTGTAGCTGTACTAGAAGGGTTGCGGTTGGCACGAAGACTGGACGTGGATTGTGTGACGGTCATGTCGGATTCCCTTGTGCTCGTCAAAGCAATTCGGGGAAGTGATCTAGTAGACTCGAGTATCTTGTCCATTTTGTGGGATATTCGTACTCTACTGACTTCGTTCCTTAGGATTAATTTTGTGCATGTAAATCATCAGTTCAATAGGTCTGCCCATGATTTGGCCCAAGTAGACCTTAATTCTAGTCCTCAGGAGTGGACTACCAACTTTCCTGGTTAA

Coding sequence (CDS)

ATGGTCCATCACCAGTTAATTCCCAGTATCGAAGAACGATGTGAGTGGATTCATGCATATCTTACTGAGTTTCGAGAGGCCAATGGGGTTCGTGCTCCTTCTCCGTTGACTGAAGAGCGATATAAAGATTTGCTTCAAAATGGGGAGGATATCATTATGCATACAGATGCTGCATTGGATGTATTAAACCAAAAATCTGTAGCTGTACTAGAAGGGTTGCGGTTGGCACGAAGACTGGACGTGGATTGTGTGACGGTCATGTCGGATTCCCTTGTGCTCGTCAAAGCAATTCGGGGAAGTGATCTAGTAGACTCGAGTATCTTGTCCATTTTGTGGGATATTCGTACTCTACTGACTTCGTTCCTTAGGATTAATTTTGTGCATGTAAATCATCAGTTCAATAGGTCTGCCCATGATTTGGCCCAAGTAGACCTTAATTCTAGTCCTCAGGAGTGGACTACCAACTTTCCTGGTTAA

Protein sequence

MVHHQLIPSIEERCEWIHAYLTEFREANGVRAPSPLTEERYKDLLQNGEDIIMHTDAALDVLNQKSVAVLEGLRLARRLDVDCVTVMSDSLVLVKAIRGSDLVDSSILSILWDIRTLLTSFLRINFVHVNHQFNRSAHDLAQVDLNSSPQEWTTNFPG

Homology

[Close]

BLAST of Lcy03g019270.1 vs. ExPASy TrEMBL
Match: A0A2N9J6Y2 (Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS60874 PE=4 SV=1)

HSP 1 Score: 56.2 bits (134), Expect = 1.4e-04
Identity = 35/98 (35.71%), Postives = 57/98 (58.16%), Query Frame = 0


Query: 63   NQKSVAVLEGLRLARRLDVDCVTVMSDSLVLVKAIRGSDLVDSSILSILWDIRTLLTSFL 122
            N +++A    L+LA  + +  V V  DSLV++ A++  +   +S   I+WDI+ L TSF 
Sbjct: 1685 NAEAMAARVALQLAWDVGLRNVEVEGDSLVVITALKDQERCLASFGDIIWDIQHLATSFQ 1744

Query: 123  RINFVHVNHQFNRSAHDLAQ--VDLNSSPQEWTTNFPG 159
             +N+ HV  + N +AH LA+  +DL+S    W  + PG
Sbjct: 1745 CVNYGHVRREGNNAAHVLARKALDLSSDFLVWLEDVPG 1782

[Close]

BLAST of Lcy03g019270.1 vs. ExPASy TrEMBL
Match: A0A446KQA7 (RNase H domain-containing protein OS=Triticum turgidum subsp. durum OX=4567 GN=TRITD_2Av1G041660 PE=4 SV=1)

HSP 1 Score: 54.7 bits (130), Expect = 4.1e-04
Identity = 35/101 (34.65%), Postives = 54/101 (53.47%), Query Frame = 0


Query: 58  ALDVLNQKSVAVLEGLRLARRLDVDCVTVMSDSLVLVKAIRGSDLVDSSILSILWDIRTL 117
           A+D  + +++A+L+GLRLA  L +  + V SDSL +V+AI       +S   +  D R L
Sbjct: 100 AMDASSMEALALLDGLRLADNLGISTLVVESDSLEIVQAILNPSDYRASAAVVTDDCRKL 159

Query: 118 LTSFLRINFVHVNHQFNRSAHDLAQVDLNS-SPQEWTTNFP 158
           LT+F R   VH   + N + H+LA+        +EW    P
Sbjct: 160 LTAFGRATVVHCARECNAAVHELARASYRGIFSEEWRDKPP 200

[Close]

BLAST of Lcy03g019270.1 vs. ExPASy TrEMBL
Match: A0A2I4DF60 (uncharacterized protein LOC108979547 OS=Juglans regia OX=51240 GN=LOC108979547 PE=4 SV=1)

HSP 1 Score: 54.3 bits (129), Expect = 5.4e-04
Identity = 31/90 (34.44%), Postives = 53/90 (58.89%), Query Frame = 0


Query: 57  AALDVLNQKSVAVLEGLRLARRLDVDCVTVMSDSLVLVKAIRGSDLVDSSILSILWDIRT 116
           AA++ L  + +A+L GL+    L +  + + SDSL+LV+ I  SD+ +S   +++ DI+ 
Sbjct: 50  AAMEPLEIELIAILRGLQFYIPLGLQSLCIESDSLLLVQEITSSDISNSIYENVVIDIQQ 109

Query: 117 LLTSFLRINFVHVNHQFNRSAHDLAQVDLN 147
           L + F   + VH+N + N  AH LA+   N
Sbjct: 110 LKSKFRSCSIVHINREANEFAHKLARFSRN 139

[Close]

BLAST of Lcy03g019270.1 vs. NCBI nr
Match: VAH27480.1 (unnamed protein product [Triticum turgidum subsp. durum])

HSP 1 Score: 54.7 bits (130), Expect = 8.5e-04
Identity = 35/101 (34.65%), Postives = 54/101 (53.47%), Query Frame = 0


Query: 58  ALDVLNQKSVAVLEGLRLARRLDVDCVTVMSDSLVLVKAIRGSDLVDSSILSILWDIRTL 117
           A+D  + +++A+L+GLRLA  L +  + V SDSL +V+AI       +S   +  D R L
Sbjct: 100 AMDASSMEALALLDGLRLADNLGISTLVVESDSLEIVQAILNPSDYRASAAVVTDDCRKL 159

Query: 118 LTSFLRINFVHVNHQFNRSAHDLAQVDLNS-SPQEWTTNFP 158
           LT+F R   VH   + N + H+LA+        +EW    P
Sbjct: 160 LTAFGRATVVHCARECNAAVHELARASYRGIFSEEWRDKPP 200

The following BLAST results are available for this feature:

BLAST of Lcy03g019270.1 vs.


Match Name	E-value	Identity	Description

BLAST of Lcy03g019270.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A2N9J6Y2	1.4e-04	35.71	Uncharacterized protein OS=Fagus sylvatica OX=28930 GN=FSB_LOCUS60874 PE=4 SV=1	[more]
A0A446KQA7	4.1e-04	34.65	RNase H domain-containing protein OS=Triticum turgidum subsp. durum OX=4567 GN=T...	[more]
A0A2I4DF60	5.4e-04	34.44	uncharacterized protein LOC108979547 OS=Juglans regia OX=51240 GN=LOC108979547 P...	[more]

BLAST of Lcy03g019270.1 vs. NCBI nr


Match Name	E-value	Identity	Description
VAH27480.1	8.5e-04	34.65	unnamed protein product [Triticum turgidum subsp. durum]	[more]

BLAST of Lcy03g019270.1 vs. NCBI nr


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (P93075) v1
Date Performed: 2021-12-06

Position :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR002156	Ribonuclease H domain	PFAM	PF13456	RVT_3	coord: 68..142 e-value: 1.0E-12 score: 47.9
IPR002156	Ribonuclease H domain	PROSITE	PS50879	RNASE_H	coord: 47..146 score: 9.012149
IPR036397	Ribonuclease H superfamily	GENE3D	3.30.420.10		coord: 65..149 e-value: 2.8E-10 score: 42.3
IPR012337	Ribonuclease H-like superfamily	SUPERFAMILY	53098	Ribonuclease H-like	coord: 66..145

Relationships

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


Feature Name	Unique Name	Type
Lcy03g019270	Lcy03g019270	gene

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


Feature Name	Unique Name	Type
Lcy03g019270.1.exon1	Lcy03g019270.1.exon1	exon
Lcy03g019270.1.exon2	Lcy03g019270.1.exon2	exon

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


Feature Name	Unique Name	Type
Lcy03g019270.1.cds1	Lcy03g019270.1.cds1	CDS
Lcy03g019270.1.cds2	Lcy03g019270.1.cds2	CDS

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


Feature Name	Unique Name	Type
Lcy03g019270.1	Lcy03g019270.1-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
molecular_function	GO:0004523	RNA-DNA hybrid ribonuclease activity