Lsi03G020960 (gene) Bottle gourd (USVL1VR-Ls)

Overview
NameLsi03G020960
Typegene
OrganismLagenaria siceraria (Bottle gourd (USVL1VR-Ls))
DescriptionRNA-binding family protein
Locationchr03 : 32236414 .. 32237402 (+)
Genome Viewer
Gene Expression
   



Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

mRNA sequence

ATGGGATTCTTTAATCACCCATTTTGCATTGCTTTATTAATTTATAGCTTGCTGCTTTACATTACCTTGGCTTTCACATTGATTATGGTTTTTTTTTTTTTGCTTATTTCAGCCAGAATTGTGACGGATCGTAATTGTGGATTCTCAAAGGGCTTTGGTTTTGTGAGATATGCTACTTTAGAAGAAGCAGAGAAAGGAATGAAAGGGATGGATGCTCAGAATATGGAAGGCCAAGAAGTCTCCCAGGACATTCATCTTACCAACCTGATAGATGATGCTTGTAAGGAGATTCAACTCATCCAATTTGGTTGGTTCACATTTTGGATATTTTCTTCACTGTCCCATGTAATCCCAATGTATTTGCAGTGATAATTGTTAATCCCAATGTATTTGCAGTGATAATTGGTAATCCCATGTAATCCCAATGTATTTGCAGTGATAATCCCAATGTATTTTCTTCACTGTCCCATTTTGGATCTA

Coding sequence (CDS)

ATGGGATTCTTTAATCACCCATTTTGCATTGCTTTATTAATTTATAGCTTGCTGCTTTACATTACCTTGGCTTTCACATTGATTATGGTTTTTTTTTTTTTGCTTATTTCAGCCAGAATTGTGACGGATCGTAATTGTGGATTCTCAAAGGGCTTTGGTTTTGTGAGATATGCTACTTTAGAAGAAGCAGAGAAAGGAATGAAAGGGATGGATGCTCAGAATATGGAAGGCCAAGAAGTCTCCCAGGACATTCATCTTACCAACCTGATAGATGATGCTTGTAAGGAGATTCAACTCATCCAATTTGGTTGGTTCACATTTTGGATATTTTCTTCACTGTCCCATGTAATCCCAATGTATTTGCAGTGA

Protein sequence

MGFFNHPFCIALLIYSLLLYITLAFTLIMVFFFLLISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEGQEVSQDIHLTNLIDDACKEIQLIQFGWFTFWIFSSLSHVIPMYLQ
Homology
[Close]
BLAST of Lsi03G020960 vs. TrEMBL
Match: A0A164VCD1_DAUCA (Uncharacterized protein OS=Daucus carota subsp. sativus GN=DCAR_022510 PE=4 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 8.1e-09
Identity = 30/43 (69.77%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDRN GFSKGFGFVRYA +EEAE G+KGMD Q ++G
Sbjct: 78  VVHARVVTDRNSGFSKGFGFVRYANVEEAEAGIKGMDGQFLDG 120

[Close]
BLAST of Lsi03G020960 vs. TrEMBL
Match: M5W579_PRUPE (Uncharacterized protein (Fragment) OS=Prunus persica GN=PRUPE_ppa023139mg PE=4 SV=1)

HSP 1 Score: 65.9 bits (159), Expect = 4.0e-08
Identity = 28/43 (65.12%), Postives = 38/43 (88.37%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           +++ ++V DR+ GFSKGFGFV YATLE+AEKG+KGMDAQ ++G
Sbjct: 77  VVNVKVVIDRDSGFSKGFGFVNYATLEDAEKGVKGMDAQVLDG 119

[Close]
BLAST of Lsi03G020960 vs. TrEMBL
Match: A0A0V0H9W4_SOLCH (Putative glycine-rich RNA-binding protein 3, mitochondrial-like OS=Solanum chacoense PE=4 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 5.2e-08
Identity = 29/43 (67.44%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDR  G+SKGFGFVRYATLE+AE G+KGMD Q ++G
Sbjct: 76  VVHARVVTDRVSGYSKGFGFVRYATLEDAEAGIKGMDGQFLDG 118

[Close]
BLAST of Lsi03G020960 vs. TrEMBL
Match: K4CH73_SOLLC (Uncharacterized protein OS=Solanum lycopersicum PE=4 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 5.2e-08
Identity = 29/43 (67.44%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDR  G+SKGFGFVRYATLE+AE G+KGMD Q ++G
Sbjct: 72  VVHARVVTDRVSGYSKGFGFVRYATLEDAEAGIKGMDGQFLDG 114

[Close]
BLAST of Lsi03G020960 vs. TrEMBL
Match: M1BP13_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400019271 PE=4 SV=1)

HSP 1 Score: 65.5 bits (158), Expect = 5.2e-08
Identity = 29/43 (67.44%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDR  G+SKGFGFVRYATLE+AE G+KGMD Q ++G
Sbjct: 78  VVHARVVTDRVSGYSKGFGFVRYATLEDAEAGIKGMDGQFLDG 120

[Close]
BLAST of Lsi03G020960 vs. TAIR10
Match: AT5G54580.1 (AT5G54580.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 58.2 bits (139), Expect = 4.2e-09
Identity = 25/40 (62.50%), Postives = 34/40 (85.00%), Query Frame = 1 

Query: 38  ARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           A++VTDR  G+SKGFGFVRYATLE++ KG+ GMD + ++G
Sbjct: 85  AKVVTDRVSGYSKGFGFVRYATLEDSAKGIAGMDGKFLDG 124

[Close]
BLAST of Lsi03G020960 vs. TAIR10
Match: AT2G37510.1 (AT2G37510.1 RNA-binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 53.1 bits (126), Expect = 1.4e-07
Identity = 26/52 (50.00%), Postives = 37/52 (71.15%), Query Frame = 1 

Query: 32  FFLLISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEGQEVSQD 84
           F  L+ AR++TDR+ G SKGFGFV YAT+E+AEK    M+A+ ++G  +  D
Sbjct: 57  FGQLVDARVITDRDSGRSKGFGFVTYATIEDAEKAKAEMNAKFLDGWVIFVD 108

[Close]
BLAST of Lsi03G020960 vs. NCBI nr
Match: gi|1021032341|gb|KZM90125.1| (hypothetical protein DCAR_022510 [Daucus carota subsp. sativus])

HSP 1 Score: 68.2 bits (165), Expect = 1.2e-08
Identity = 30/43 (69.77%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDRN GFSKGFGFVRYA +EEAE G+KGMD Q ++G
Sbjct: 78  VVHARVVTDRNSGFSKGFGFVRYANVEEAEAGIKGMDGQFLDG 120

[Close]
BLAST of Lsi03G020960 vs. NCBI nr
Match: gi|769809550|ref|XP_011624062.1| (PREDICTED: glycine-rich RNA-binding protein 3, mitochondrial-like [Amborella trichopoda])

HSP 1 Score: 67.0 bits (162), Expect = 2.6e-08
Identity = 30/43 (69.77%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDR  G+SKGFGFVRYATLEEAE G+KGMD Q ++G
Sbjct: 66  VVQARVVTDRVSGYSKGFGFVRYATLEEAEAGIKGMDGQFLDG 108

[Close]
BLAST of Lsi03G020960 vs. NCBI nr
Match: gi|645220662|ref|XP_008241226.1| (PREDICTED: glycine-rich RNA-binding protein 6, mitochondrial-like [Prunus mume])

HSP 1 Score: 65.9 bits (159), Expect = 5.8e-08
Identity = 28/43 (65.12%), Postives = 38/43 (88.37%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           +++ ++V DR+ GFSKGFGFV YATLE+AEKG+KGMDAQ ++G
Sbjct: 77  VVNVKVVIDRDSGFSKGFGFVNYATLEDAEKGVKGMDAQVLDG 119

[Close]
BLAST of Lsi03G020960 vs. NCBI nr
Match: gi|595838569|ref|XP_007207675.1| (hypothetical protein PRUPE_ppa023139mg, partial [Prunus persica])

HSP 1 Score: 65.9 bits (159), Expect = 5.8e-08
Identity = 28/43 (65.12%), Postives = 38/43 (88.37%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           +++ ++V DR+ GFSKGFGFV YATLE+AEKG+KGMDAQ ++G
Sbjct: 77  VVNVKVVIDRDSGFSKGFGFVNYATLEDAEKGVKGMDAQVLDG 119

[Close]
BLAST of Lsi03G020960 vs. NCBI nr
Match: gi|970038288|ref|XP_015080482.1| (PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Solanum pennellii])

HSP 1 Score: 65.5 bits (158), Expect = 7.5e-08
Identity = 29/43 (67.44%), Postives = 37/43 (86.05%), Query Frame = 1 

Query: 35  LISARIVTDRNCGFSKGFGFVRYATLEEAEKGMKGMDAQNMEG 78
           ++ AR+VTDR  G+SKGFGFVRYATLE+AE G+KGMD Q ++G
Sbjct: 74  VVHARVVTDRVSGYSKGFGFVRYATLEDAEAGIKGMDGQFLDG 116

The following BLAST results are available for this feature:
BLAST of Lsi03G020960 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of Lsi03G020960 vs. TrEMBL
Match NameE-valueIdentityDescription
A0A164VCD1_DAUCA8.1e-0969.77Uncharacterized protein OS=Daucus carota subsp. sativus GN=DCAR_022510 PE=4 SV=1[more]
M5W579_PRUPE4.0e-0865.12Uncharacterized protein (Fragment) OS=Prunus persica GN=PRUPE_ppa023139mg PE=4 S... [more]
A0A0V0H9W4_SOLCH5.2e-0867.44Putative glycine-rich RNA-binding protein 3, mitochondrial-like OS=Solanum chaco... [more]
K4CH73_SOLLC5.2e-0867.44Uncharacterized protein OS=Solanum lycopersicum PE=4 SV=1[more]
M1BP13_SOLTU5.2e-0867.44Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400019271 PE=4 SV=1[more]
BLAST of Lsi03G020960 vs. TAIR10
Match NameE-valueIdentityDescription
AT5G54580.14.2e-0962.50 RNA-binding (RRM/RBD/RNP motifs) family protein[more]
AT2G37510.11.4e-0750.00 RNA-binding (RRM/RBD/RNP motifs) family protein[more]
BLAST of Lsi03G020960 vs. NCBI nr
Match NameE-valueIdentityDescription
gi|1021032341|gb|KZM90125.1|1.2e-0869.77hypothetical protein DCAR_022510 [Daucus carota subsp. sativus][more]
gi|769809550|ref|XP_011624062.1|2.6e-0869.77PREDICTED: glycine-rich RNA-binding protein 3, mitochondrial-like [Amborella tri... [more]
gi|645220662|ref|XP_008241226.1|5.8e-0865.12PREDICTED: glycine-rich RNA-binding protein 6, mitochondrial-like [Prunus mume][more]
gi|595838569|ref|XP_007207675.1|5.8e-0865.12hypothetical protein PRUPE_ppa023139mg, partial [Prunus persica][more]
gi|970038288|ref|XP_015080482.1|7.5e-0867.44PREDICTED: glycine-rich RNA-binding protein 4, mitochondrial [Solanum pennellii][more]
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Molecular Function
TermDefinition
GO:0000166nucleotide binding
GO:0003676nucleic acid binding
Vocabulary: INTERPRO
TermDefinition
IPR012677Nucleotide-bd_a/b_plait_sf
IPR000504RRM_dom
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0008150 biological_process
cellular_component GO:0005739 mitochondrion
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0000166 nucleotide binding
Relationships

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

Feature NameUnique NameType
Lsi03G020960.1Lsi03G020960.1mRNA


InterPro
Analysis Name: InterPro Annotations of Lagenaria siceraria
Date Performed: 2017-09-18
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000504RNA recognition motif domainPFAMPF00076RRM_1coord: 37..80
score: 1.
IPR000504RNA recognition motif domainPROFILEPS50102RRMcoord: 10..80
score: 8
IPR012677Nucleotide-binding alpha-beta plait domainGENE3DG3DSA:3.30.70.330coord: 37..81
score: 1.
IPR012677Nucleotide-binding alpha-beta plait domainunknownSSF54928RNA-binding domain, RBDcoord: 36..80
score: 1.

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Lsi03G020960Cla017886Watermelon (97103) v1lsiwmB240
Lsi03G020960ClCG10G021010Watermelon (Charleston Gray)lsiwcgB219
Lsi03G020960Cla97C10G204240Watermelon (97103) v2lsiwmbB218
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Lsi03G020960Cucumber (Gy14) v1cgylsiB064
Lsi03G020960Cucumber (Gy14) v1cgylsiB275
Lsi03G020960Cucumber (Gy14) v1cgylsiB296
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB242
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB278
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB524
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB575
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB612
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB661
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB666
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB754
Lsi03G020960Cucurbita maxima (Rimu)cmalsiB799
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB230
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB509
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB553
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB599
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB653
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB655
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB747
Lsi03G020960Cucurbita moschata (Rifu)cmolsiB787
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB061
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB241
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB404
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB503
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB614
Lsi03G020960Cucurbita pepo (Zucchini)cpelsiB707
Lsi03G020960Wild cucumber (PI 183967)cpilsiB185
Lsi03G020960Wild cucumber (PI 183967)cpilsiB276
Lsi03G020960Wild cucumber (PI 183967)cpilsiB364
Lsi03G020960Cucumber (Chinese Long) v2culsiB187
Lsi03G020960Cucumber (Chinese Long) v2culsiB278
Lsi03G020960Cucumber (Chinese Long) v2culsiB360
Lsi03G020960Melon (DHL92) v3.5.1lsimeB239
Lsi03G020960Melon (DHL92) v3.5.1lsimeB235
Lsi03G020960Melon (DHL92) v3.5.1lsimeB260
Lsi03G020960Melon (DHL92) v3.5.1lsimeB275
Lsi03G020960Watermelon (Charleston Gray)lsiwcgB235
Lsi03G020960Watermelon (Charleston Gray)lsiwcgB241
Lsi03G020960Watermelon (Charleston Gray)lsiwcgB248
Lsi03G020960Watermelon (97103) v1lsiwmB271
Lsi03G020960Watermelon (97103) v1lsiwmB267
Lsi03G020960Cucumber (Gy14) v2cgyblsiB171
Lsi03G020960Cucumber (Gy14) v2cgyblsiB258
Lsi03G020960Cucumber (Gy14) v2cgyblsiB329
Lsi03G020960Cucumber (Gy14) v2cgyblsiB416
Lsi03G020960Melon (DHL92) v3.6.1lsimedB248
Lsi03G020960Melon (DHL92) v3.6.1lsimedB251
Lsi03G020960Melon (DHL92) v3.6.1lsimedB273
Lsi03G020960Melon (DHL92) v3.6.1lsimedB288
Lsi03G020960Silver-seed gourdcarlsiB141
Lsi03G020960Silver-seed gourdcarlsiB282
Lsi03G020960Silver-seed gourdcarlsiB311
Lsi03G020960Silver-seed gourdcarlsiB427
Lsi03G020960Silver-seed gourdcarlsiB849
Lsi03G020960Silver-seed gourdcarlsiB915
Lsi03G020960Wax gourdlsiwgoB293
Lsi03G020960Cucumber (Chinese Long) v3cuclsiB203
Lsi03G020960Cucumber (Chinese Long) v3cuclsiB299
Lsi03G020960Cucumber (Chinese Long) v3cuclsiB379
Lsi03G020960Cucumber (Chinese Long) v3cuclsiB479
Lsi03G020960Watermelon (97103) v2lsiwmbB228
Lsi03G020960Watermelon (97103) v2lsiwmbB235
Lsi03G020960Watermelon (97103) v2lsiwmbB241
Lsi03G020960Wax gourdlsiwgoB327
Lsi03G020960Bottle gourd (USVL1VR-Ls)lsilsiB040
Lsi03G020960Bottle gourd (USVL1VR-Ls)lsilsiB070
Lsi03G020960Bottle gourd (USVL1VR-Ls)lsilsiB127