Spg024840 (gene) Sponge gourd (cylindrica) v1

Overview
NameSpg024840
Typegene
OrganismLuffa cylindrica (Sponge gourd (cylindrica) v1)
DescriptionRNase H domain-containing protein
Locationscaffold12: 10482448 .. 10482921 (-)
RNA-Seq ExpressionSpg024840
SyntenySpg024840
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGGCCGGAAGTAAGCGAATCAATCGGAAATGGAGGATCAACTCGTTGGAGCTAGCGGCAATTAAGGAAGGGCTAGAGGCGTACCTGTCTCTGGTTCGAAGAGGGCGTGGCGCGTTGATCGTTGAAGCGGACGCCATGGAGGTGATTAAAGCTCTAAATTTTGAAATCAGCGATATCTCCGAAGCCAAGGCAATCGTGATTGATATTGAGGATCTGGCGACTAGGTTGGGAGATGTTTCCTTCGTAAAATGCCCAAGAGAGGGCAATAGAGTGGCGCACTGTCTTGCGCGAGCTGCAGCGGGATTTCTGCAGCTTTCTTCTCCGTCGACCGGTGCTGTGGACAGCTTTTCTGACTGTATTTCTTCTTCTTCCATGCTGGAAGGGTCTACTTTTTGTAGGGAAGCTTTTATTCCCATTTGGTTATCCTCGCTGATCTCTGAGGATGGTAGTTGTAACGAACCCTTTCGTGTTTAA

mRNA sequence

ATGGCCGGAAGTAAGCGAATCAATCGGAAATGGAGGATCAACTCGTTGGAGCTAGCGGCAATTAAGGAAGGGCTAGAGGCGTACCTGTCTCTGGTTCGAAGAGGGCGTGGCGCGTTGATCGTTGAAGCGGACGCCATGGAGGTGATTAAAGCTCTAAATTTTGAAATCAGCGATATCTCCGAAGCCAAGGCAATCGTGATTGATATTGAGGATCTGGCGACTAGGTTGGGAGATGTTTCCTTCGTAAAATGCCCAAGAGAGGGCAATAGAGTGGCGCACTGTCTTGCGCGAGCTGCAGCGGGATTTCTGCAGCTTTCTTCTCCGTCGACCGGTGCTGTGGACAGCTTTTCTGACTGTATTTCTTCTTCTTCCATGCTGGAAGGGTCTACTTTTTGTAGGGAAGCTTTTATTCCCATTTGGTTATCCTCGCTGATCTCTGAGGATGGTAGTTGTAACGAACCCTTTCGTGTTTAA

Coding sequence (CDS)

ATGGCCGGAAGTAAGCGAATCAATCGGAAATGGAGGATCAACTCGTTGGAGCTAGCGGCAATTAAGGAAGGGCTAGAGGCGTACCTGTCTCTGGTTCGAAGAGGGCGTGGCGCGTTGATCGTTGAAGCGGACGCCATGGAGGTGATTAAAGCTCTAAATTTTGAAATCAGCGATATCTCCGAAGCCAAGGCAATCGTGATTGATATTGAGGATCTGGCGACTAGGTTGGGAGATGTTTCCTTCGTAAAATGCCCAAGAGAGGGCAATAGAGTGGCGCACTGTCTTGCGCGAGCTGCAGCGGGATTTCTGCAGCTTTCTTCTCCGTCGACCGGTGCTGTGGACAGCTTTTCTGACTGTATTTCTTCTTCTTCCATGCTGGAAGGGTCTACTTTTTGTAGGGAAGCTTTTATTCCCATTTGGTTATCCTCGCTGATCTCTGAGGATGGTAGTTGTAACGAACCCTTTCGTGTTTAA

Protein sequence

MAGSKRINRKWRINSLELAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLATRLGDVSFVKCPREGNRVAHCLARAAAGFLQLSSPSTGAVDSFSDCISSSSMLEGSTFCREAFIPIWLSSLISEDGSCNEPFRV
Homology
BLAST of Spg024840 vs. NCBI nr
Match: XP_024195627.1 (uncharacterized protein LOC112198738 [Rosa chinensis])

HSP 1 Score: 57.4 bits (137), Expect = 1.3e-04
Identity = 32/81 (39.51%), Postives = 50/81 (61.73%), Query Frame = 0

Query: 17  ELAAIKEGLEAYLSL-VRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLATR 76
           +L A+K GLE   +L V R     ++E+D +  ++A+N    D+SE  A++ DI+ L T 
Sbjct: 517 KLLALKFGLELLQALNVTRE----VIESDCLNAVQAINSVAGDLSELVALIADIKGLVTT 576

Query: 77  LGDVSFVKCPREGNRVAHCLA 97
           +G+V+    PR+ N VAHCLA
Sbjct: 577 IGEVTICFSPRQANMVAHCLA 593

BLAST of Spg024840 vs. NCBI nr
Match: KAG8379865.1 (hypothetical protein BUALT_Bualt07G0133800 [Buddleja alternifolia])

HSP 1 Score: 57.0 bits (136), Expect = 1.7e-04
Identity = 32/85 (37.65%), Postives = 46/85 (54.12%), Query Frame = 0

Query: 18  LAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLATRLG 77
           L++ KE L   L  VRR   ++I+E D ++VI+ L   +SD S    I++DI  L +   
Sbjct: 43  LSSFKERLGKLLLAVRRSWHSIIIEGDCIQVIQKLQRSVSDCSNINPIILDILSLVSSFL 102

Query: 78  DVSFVKCPREGNRVAHCLARAAAGF 103
              +    R GNRVAHC AR  + F
Sbjct: 103 SCLYSHVRRSGNRVAHCYARLLSSF 127

BLAST of Spg024840 vs. NCBI nr
Match: XP_023887146.1 (uncharacterized protein LOC111999255 [Quercus suber])

HSP 1 Score: 56.2 bits (134), Expect = 2.9e-04
Identity = 37/93 (39.78%), Postives = 49/93 (52.69%), Query Frame = 0

Query: 15  SLELAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLAT 74
           S+E+  +     A       G   +IVE D+  VIKAL+      S    IV D++ LA+
Sbjct: 133 SVEMVEVLAARSALCFAKELGFNNIIVEGDSEIVIKALSTNGPSFSSIGHIVKDVKVLAS 192

Query: 75  RLGDVSFVKCPREGNRVAHCLARAAAGFLQLSS 108
            LG+VSF    R+GNRVAH LAR A  F+   S
Sbjct: 193 SLGNVSFNHTRRQGNRVAHGLARLACNFIHFQS 225

BLAST of Spg024840 vs. NCBI nr
Match: XP_023889222.1 (LOW QUALITY PROTEIN: uncharacterized protein LOC112001275 [Quercus suber])

HSP 1 Score: 55.1 bits (131), Expect = 6.5e-04
Identity = 40/110 (36.36%), Postives = 55/110 (50.00%), Query Frame = 0

Query: 15   SLELAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLAT 74
            S+E+  +     A       G   +IVE D+  VIKAL+      S    IV D++ LA+
Sbjct: 1517 SVEMVEVLAARSALCFAKELGFNNIIVEGDSEIVIKALSTNGPSFSSIGHIVKDVKVLAS 1576

Query: 75   RLGDVSFVKCPREGNRVAHCLARAAAGFLQLSSPSTGAVDSFSDCISSSS 125
             LG+V F    R+GNRVAH LAR A  F+   S   G   +  +  SS+S
Sbjct: 1577 SLGNVFFNHTRRQGNRVAHGLARLACNFIHFQSWMEGVPPAVEELKSSNS 1626

BLAST of Spg024840 vs. NCBI nr
Match: VAI60256.1 (unnamed protein product [Triticum turgidum subsp. durum])

HSP 1 Score: 54.7 bits (130), Expect = 8.4e-04
Identity = 37/81 (45.68%), Postives = 47/81 (58.02%), Query Frame = 0

Query: 17  ELAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLATRL 76
           E  AI+ GLE    L   G   +IVE+D++EVI+A N  I   S   AI+ D    + R+
Sbjct: 55  EAVAIQRGLELVEGL---GCHQVIVESDSLEVIQACNGVIEIWSPYTAILADCFQKSYRI 114

Query: 77  GDVSFVKCPREGNRVAHCLAR 98
           G VSF  C RE NR+AH LAR
Sbjct: 115 GVVSFTHCLREANRLAHNLAR 132

BLAST of Spg024840 vs. ExPASy TrEMBL
Match: A0A446WJF0 (RNase H domain-containing protein OS=Triticum turgidum subsp. durum OX=4567 GN=TRITD_6Bv1G167780 PE=4 SV=1)

HSP 1 Score: 54.7 bits (130), Expect = 4.1e-04
Identity = 37/81 (45.68%), Postives = 47/81 (58.02%), Query Frame = 0

Query: 17  ELAAIKEGLEAYLSLVRRGRGALIVEADAMEVIKALNFEISDISEAKAIVIDIEDLATRL 76
           E  AI+ GLE    L   G   +IVE+D++EVI+A N  I   S   AI+ D    + R+
Sbjct: 55  EAVAIQRGLELVEGL---GCHQVIVESDSLEVIQACNGVIEIWSPYTAILADCFQKSYRI 114

Query: 77  GDVSFVKCPREGNRVAHCLAR 98
           G VSF  C RE NR+AH LAR
Sbjct: 115 GVVSFTHCLREANRLAHNLAR 132

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
XP_024195627.11.3e-0439.51uncharacterized protein LOC112198738 [Rosa chinensis][more]
KAG8379865.11.7e-0437.65hypothetical protein BUALT_Bualt07G0133800 [Buddleja alternifolia][more]
XP_023887146.12.9e-0439.78uncharacterized protein LOC111999255 [Quercus suber][more]
XP_023889222.16.5e-0436.36LOW QUALITY PROTEIN: uncharacterized protein LOC112001275 [Quercus suber][more]
VAI60256.18.4e-0445.68unnamed protein product [Triticum turgidum subsp. durum][more]
Match NameE-valueIdentityDescription
Match NameE-valueIdentityDescription
A0A446WJF04.1e-0445.68RNase H domain-containing protein OS=Triticum turgidum subsp. durum OX=4567 GN=T... [more]
Match NameE-valueIdentityDescription
InterPro
Analysis Name: InterPro Annotations of Sponge gourd (cylindrica) v1
Date Performed: 2022-08-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR002156Ribonuclease H domainPFAMPF13456RVT_3coord: 2..99
e-value: 2.0E-11
score: 43.8
IPR002156Ribonuclease H domainPROSITEPS50879RNASE_Hcoord: 1..101
score: 8.913076
IPR036397Ribonuclease H superfamilyGENE3D3.30.420.10coord: 1..102
e-value: 1.4E-9
score: 40.0
IPR044730Ribonuclease H-like domain, plant typeCDDcd06222RNase_H_likecoord: 13..97
e-value: 1.72245E-16
score: 69.2652
IPR012337Ribonuclease H-like superfamilySUPERFAMILY53098Ribonuclease H-likecoord: 9..103

Relationships

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

Feature NameUnique NameType
Spg024840.1Spg024840.1mRNA


GO Annotation
GO Assignments
This gene 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