Lsi09G016930 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview
NameLsi09G016930
Typegene
OrganismLagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
DescriptionRGG repeats nuclear RNA binding protein A-like
Locationchr09: 25420053 .. 25421244 (-)
RNA-Seq ExpressionLsi09G016930
SyntenyLsi09G016930
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.
ATGGCTAGTGTGACCTCTTACTTTTCAGGCATAAAGTAGTGAGTTTTCTACTTTAGATAATGTGCAAGTTGTTTGTTTTAGCGACAAATTAATGTTTGTCTTTTCGGCACTCATCCCACTAAACGCAAACCCATCACCAGCCACTAGTACCACTAAAAATTTTCTGTGAAGTCAATTAATGCAGTAAGGCATATGCCTTCCACGTTGCAATAATGTAAGCATGGAGGAGCGTGCCTCTCGTTCAACATAGGTATAGGCCACTTCTTCTGTTCCGACGTAGTCTAAATCTCGCAATTTTATTTCCCCGAGCCTTATATTTTGAAAACGTTGATGTCCTGCCAGCACATAGGATGCTCTTTTTGGGCTTATTCTGAACCTACCTAAAGAAATTTAATAGAATTACTCTTTCTTTAAGAATATTATATCACATGTGGTTGAAATTTCCCTTGATGACCTATTAGAGTTGGTAGAGGTGACTTACTTGGTGAGCCTATGCTCAGGTTGACCGGAAAAATTTGAATACGATAATATTTTTCATTATTTAGAACCATTATTAGAGGAAAATAAGTTTCTTATAAAATTGTGCTTTGAAGAATTTCATTTGGCCTTTATCTTCCAATGTTCTTCATCTTCATAAAAAATGCTAACCTTAAATTGCAATGAAATCATTCTTCAAGTTGATTACACTAGATTTCTAAAGAATGGATTTAATTCGTTAAAAGTACTATTTATTCCAGATGATAGAATTTGCTTCCAAATACAGTTTTTTATAAAGTTATGGTTCTAACTTTTAATTTTGCCCATCAGAATGAAGGAGCTCTATTTTTCTTGCCCTACAACATTGTTTTAGCCCTTCATAACATTGAAATGTTTTCTGTACGTTGGTGGAATATAATTTTGATTAACGGGTCTATGCAAATTAGGCATTTGGTTTTCAAAAATTCCTGAAATTTTGAAAATAGACCTTGTAAAAGGTTAAATGACTGATGTTTTTTTTCCCACTTGTTGTTAGTCTTTGAGTATTAATGAGTTTTTGAGGCCTGCGGAAGGAGAGCGACACTATGCCCCTGGTGGCCGAGGAAGGGGTCGTGGCCGTGGTTCAAGGGGAGGATACAGTGGCAGCTCGATAAGCAATGTTGCAGCCCCATCCATTGAAGACCCTGGGCAGTTCCCGACCTTAGGTGCGAAGTGA

mRNA sequence

ATGGCTAGTTCTTTGAGTATTAATGAGTTTTTGAGGCCTGCGGAAGGAGAGCGACACTATGCCCCTGGTGGCCGAGGAAGGGGTCGTGGCCGTGGTTCAAGGGGAGGATACAGTGGCAGCTCGATAAGCAATGTTGCAGCCCCATCCATTGAAGACCCTGGGCAGTTCCCGACCTTAGGTGCGAAGTGA

Coding sequence (CDS)

ATGGCTAGTTCTTTGAGTATTAATGAGTTTTTGAGGCCTGCGGAAGGAGAGCGACACTATGCCCCTGGTGGCCGAGGAAGGGGTCGTGGCCGTGGTTCAAGGGGAGGATACAGTGGCAGCTCGATAAGCAATGTTGCAGCCCCATCCATTGAAGACCCTGGGCAGTTCCCGACCTTAGGTGCGAAGTGA

Protein sequence

MASSLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK
Homology
BLAST of Lsi09G016930 vs. ExPASy Swiss-Prot
Match: Q9SQ56 (RGG repeats nuclear RNA binding protein A (Fragment) OS=Nicotiana tabacum OX=4097 GN=RggA PE=2 SV=1)

HSP 1 Score: 63.5 bits (153), Expect = 9.4e-10
Identity = 38/59 (64.41%), Postives = 43/59 (72.88%), Query Frame = 0

Query: 6   SINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISN--VAAPSIEDPGQFPTLGAK 63
           SINEFL+PAEGE +   GGRGRG GRG RGG+ G    N   +APSIED GQFP+L AK
Sbjct: 242 SINEFLKPAEGENYSRRGGRGRGPGRG-RGGFGGGVGGNKSFSAPSIEDVGQFPSLVAK 299

BLAST of Lsi09G016930 vs. ExPASy Swiss-Prot
Match: O23523 (RGG repeats nuclear RNA binding protein A OS=Arabidopsis thaliana OX=3702 GN=RGGA PE=1 SV=1)

HSP 1 Score: 57.0 bits (136), Expect = 8.8e-08
Identity = 33/62 (53.23%), Postives = 39/62 (62.90%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYS---GSSISNVAAPSIEDPGQFPTLG 63
           ++SINEFL+PAEG  +Y  G  GRGRG   RGG S        N AAP+I D  QFP+LG
Sbjct: 294 AVSINEFLKPAEGGNYYRGGRGGRGRGGRGRGGVSSGESGGYRNEAAPAIGDAAQFPSLG 353

BLAST of Lsi09G016930 vs. ExPASy Swiss-Prot
Match: Q9LVT8 (RGG repeats nuclear RNA binding protein C OS=Arabidopsis thaliana OX=3702 GN=RGGC PE=1 SV=1)

HSP 1 Score: 53.5 bits (127), Expect = 9.7e-07
Identity = 33/59 (55.93%), Postives = 40/59 (67.80%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGR-GRGSRG-GYSGSSISNVAAPSIEDPGQFPTLG 61
           SLSINEFL+PA+G+R+   GG  RGR GRG RG G +       AAP+I D  QFP+LG
Sbjct: 299 SLSINEFLKPADGKRYNGRGGGSRGRGGRGGRGEGGNQRYAKEAAAPAIGDTAQFPSLG 357

BLAST of Lsi09G016930 vs. ExPASy Swiss-Prot
Match: O23593 (RGG repeats nuclear RNA binding protein B OS=Arabidopsis thaliana OX=3702 GN=RGGB PE=1 SV=1)

HSP 1 Score: 44.3 bits (103), Expect = 5.9e-04
Identity = 30/75 (40.00%), Postives = 37/75 (49.33%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAP-----GGR-------------GRGRGRGSRGGYSGSSISNV 61
           SLSINEFL+PA+G+ +Y P     GGR             GR    G R    G + +  
Sbjct: 285 SLSINEFLKPADGKSYYRPRGGYQGGREGRGPREGNQRDGGRNLREGGRNQRDGGAAAQA 344

BLAST of Lsi09G016930 vs. ExPASy TrEMBL
Match: A0A6J1F3H7 (RGG repeats nuclear RNA binding protein A-like isoform X1 OS=Cucurbita moschata OX=3662 GN=LOC111439720 PE=4 SV=1)

HSP 1 Score: 115.2 bits (287), Expect = 1.0e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 302 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 360

BLAST of Lsi09G016930 vs. ExPASy TrEMBL
Match: A0A6J1EYL1 (RGG repeats nuclear RNA binding protein A-like isoform X2 OS=Cucurbita moschata OX=3662 GN=LOC111439720 PE=4 SV=1)

HSP 1 Score: 115.2 bits (287), Expect = 1.0e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 301 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 359

BLAST of Lsi09G016930 vs. ExPASy TrEMBL
Match: A0A5A7TA33 (H/ACA ribonucleoprotein complex subunit 1-like OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold266G002670 PE=4 SV=1)

HSP 1 Score: 113.2 bits (282), Expect = 3.8e-22
Identity = 56/59 (94.92%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGYSGSS+SNVAAPSIEDPGQFP LGAK
Sbjct: 304 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYSGSSMSNVAAPSIEDPGQFPILGAK 362

BLAST of Lsi09G016930 vs. ExPASy TrEMBL
Match: A0A1S3CBH1 (H/ACA ribonucleoprotein complex subunit 1-like OS=Cucumis melo OX=3656 GN=LOC103498821 PE=4 SV=1)

HSP 1 Score: 113.2 bits (282), Expect = 3.8e-22
Identity = 56/59 (94.92%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGYSGSS+SNVAAPSIEDPGQFP LGAK
Sbjct: 303 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYSGSSMSNVAAPSIEDPGQFPILGAK 361

BLAST of Lsi09G016930 vs. ExPASy TrEMBL
Match: A0A0A0K9Z4 (HABP4_PAI-RBP1 domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_6G106180 PE=4 SV=1)

HSP 1 Score: 111.3 bits (277), Expect = 1.5e-21
Identity = 55/59 (93.22%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPA+GERHYAPGGRGRGRGRGSRGGYSGS +SNVAAPSI DPGQFPTLGAK
Sbjct: 303 SLSINEFLRPADGERHYAPGGRGRGRGRGSRGGYSGSPMSNVAAPSIGDPGQFPTLGAK 361

BLAST of Lsi09G016930 vs. NCBI nr
Match: XP_023520985.1 (RGG repeats nuclear RNA binding protein A-like isoform X2 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 115.2 bits (287), Expect = 2.1e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 301 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 359

BLAST of Lsi09G016930 vs. NCBI nr
Match: XP_022933028.1 (RGG repeats nuclear RNA binding protein A-like isoform X1 [Cucurbita moschata])

HSP 1 Score: 115.2 bits (287), Expect = 2.1e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 302 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 360

BLAST of Lsi09G016930 vs. NCBI nr
Match: XP_023520984.1 (RGG repeats nuclear RNA binding protein A-like isoform X1 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 115.2 bits (287), Expect = 2.1e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 302 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 360

BLAST of Lsi09G016930 vs. NCBI nr
Match: KAG7011066.1 (RGG repeats nuclear RNA binding protein B [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 115.2 bits (287), Expect = 2.1e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 301 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 359

BLAST of Lsi09G016930 vs. NCBI nr
Match: XP_022933029.1 (RGG repeats nuclear RNA binding protein A-like isoform X2 [Cucurbita moschata])

HSP 1 Score: 115.2 bits (287), Expect = 2.1e-22
Identity = 57/59 (96.61%), Postives = 57/59 (96.61%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYSGSSISNVAAPSIEDPGQFPTLGAK 63
           SLSINEFLRPAEGERHY PGGRGRGRGRGSRGGY GSSISNVAAPSIEDPGQFPTLGAK
Sbjct: 301 SLSINEFLRPAEGERHYTPGGRGRGRGRGSRGGYGGSSISNVAAPSIEDPGQFPTLGAK 359

BLAST of Lsi09G016930 vs. TAIR 10
Match: AT4G16830.1 (Hyaluronan / mRNA binding family )

HSP 1 Score: 57.0 bits (136), Expect = 6.3e-09
Identity = 33/62 (53.23%), Postives = 39/62 (62.90%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYS---GSSISNVAAPSIEDPGQFPTLG 63
           ++SINEFL+PAEG  +Y  G  GRGRG   RGG S        N AAP+I D  QFP+LG
Sbjct: 294 AVSINEFLKPAEGGNYYRGGRGGRGRGGRGRGGVSSGESGGYRNEAAPAIGDAAQFPSLG 353

BLAST of Lsi09G016930 vs. TAIR 10
Match: AT4G16830.2 (Hyaluronan / mRNA binding family )

HSP 1 Score: 57.0 bits (136), Expect = 6.3e-09
Identity = 33/62 (53.23%), Postives = 39/62 (62.90%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYS---GSSISNVAAPSIEDPGQFPTLG 63
           ++SINEFL+PAEG  +Y  G  GRGRG   RGG S        N AAP+I D  QFP+LG
Sbjct: 204 AVSINEFLKPAEGGNYYRGGRGGRGRGGRGRGGVSSGESGGYRNEAAPAIGDAAQFPSLG 263

BLAST of Lsi09G016930 vs. TAIR 10
Match: AT4G16830.3 (Hyaluronan / mRNA binding family )

HSP 1 Score: 57.0 bits (136), Expect = 6.3e-09
Identity = 33/62 (53.23%), Postives = 39/62 (62.90%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGRGRGSRGGYS---GSSISNVAAPSIEDPGQFPTLG 63
           ++SINEFL+PAEG  +Y  G  GRGRG   RGG S        N AAP+I D  QFP+LG
Sbjct: 284 AVSINEFLKPAEGGNYYRGGRGGRGRGGRGRGGVSSGESGGYRNEAAPAIGDAAQFPSLG 343

BLAST of Lsi09G016930 vs. TAIR 10
Match: AT5G47210.1 (Hyaluronan / mRNA binding family )

HSP 1 Score: 53.5 bits (127), Expect = 6.9e-08
Identity = 33/59 (55.93%), Postives = 40/59 (67.80%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAPGGRGRGR-GRGSRG-GYSGSSISNVAAPSIEDPGQFPTLG 61
           SLSINEFL+PA+G+R+   GG  RGR GRG RG G +       AAP+I D  QFP+LG
Sbjct: 299 SLSINEFLKPADGKRYNGRGGGSRGRGGRGGRGEGGNQRYAKEAAAPAIGDTAQFPSLG 357

BLAST of Lsi09G016930 vs. TAIR 10
Match: AT4G17520.1 (Hyaluronan / mRNA binding family )

HSP 1 Score: 44.3 bits (103), Expect = 4.2e-05
Identity = 30/75 (40.00%), Postives = 37/75 (49.33%), Query Frame = 0

Query: 4   SLSINEFLRPAEGERHYAP-----GGR-------------GRGRGRGSRGGYSGSSISNV 61
           SLSINEFL+PA+G+ +Y P     GGR             GR    G R    G + +  
Sbjct: 285 SLSINEFLKPADGKSYYRPRGGYQGGREGRGPREGNQRDGGRNLREGGRNQRDGGAAAQA 344

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
Q9SQ569.4e-1064.41RGG repeats nuclear RNA binding protein A (Fragment) OS=Nicotiana tabacum OX=409... [more]
O235238.8e-0853.23RGG repeats nuclear RNA binding protein A OS=Arabidopsis thaliana OX=3702 GN=RGG... [more]
Q9LVT89.7e-0755.93RGG repeats nuclear RNA binding protein C OS=Arabidopsis thaliana OX=3702 GN=RGG... [more]
O235935.9e-0440.00RGG repeats nuclear RNA binding protein B OS=Arabidopsis thaliana OX=3702 GN=RGG... [more]
Match NameE-valueIdentityDescription
A0A6J1F3H71.0e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X1 OS=Cucurbita moschata ... [more]
A0A6J1EYL11.0e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X2 OS=Cucurbita moschata ... [more]
A0A5A7TA333.8e-2294.92H/ACA ribonucleoprotein complex subunit 1-like OS=Cucumis melo var. makuwa OX=11... [more]
A0A1S3CBH13.8e-2294.92H/ACA ribonucleoprotein complex subunit 1-like OS=Cucumis melo OX=3656 GN=LOC103... [more]
A0A0A0K9Z41.5e-2193.22HABP4_PAI-RBP1 domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_6G106... [more]
Match NameE-valueIdentityDescription
XP_023520985.12.1e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X2 [Cucurbita pepo subsp.... [more]
XP_022933028.12.1e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X1 [Cucurbita moschata][more]
XP_023520984.12.1e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X1 [Cucurbita pepo subsp.... [more]
KAG7011066.12.1e-2296.61RGG repeats nuclear RNA binding protein B [Cucurbita argyrosperma subsp. argyros... [more]
XP_022933029.12.1e-2296.61RGG repeats nuclear RNA binding protein A-like isoform X2 [Cucurbita moschata][more]
Match NameE-valueIdentityDescription
AT4G16830.16.3e-0953.23Hyaluronan / mRNA binding family [more]
AT4G16830.26.3e-0953.23Hyaluronan / mRNA binding family [more]
AT4G16830.36.3e-0953.23Hyaluronan / mRNA binding family [more]
AT5G47210.16.9e-0855.93Hyaluronan / mRNA binding family [more]
AT4G17520.14.2e-0540.00Hyaluronan / mRNA binding family [more]
InterPro
Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 1..62
NoneNo IPR availablePANTHERPTHR12299:SF47NUCLEAR RNA-BINDING-LIKE PROTEINcoord: 4..62
IPR039764RNA binding protein HABP4/SERBP1PANTHERPTHR12299HYALURONIC ACID-BINDING PROTEIN 4coord: 4..62

Relationships

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

Feature NameUnique NameType
Lsi09G016930.1Lsi09G016930.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
cellular_component GO:0005737 cytoplasm
cellular_component GO:0005634 nucleus
molecular_function GO:0003729 mRNA binding
molecular_function GO:0003723 RNA binding