CsGy3G039480 (gene) Cucumber (Gy14) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CsGy3G039480
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v2)
Description	small nuclear ribonucleoprotein Sm D1-like
Location	Chr3 : 37145270 .. 37149183 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: five_prime_UTRexonCDS

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

ATTTGAAATAAACAAGCTCAATGAGAGTGATAAGCAAAAATTAGATGAGTGTCACCAACAATGAGAATTACACCATTGGCCATATTTGATTTTGTGATGCAATGTTTTAATTAATAACGCAAAGTTGGGCTCAAAAGATTAAAGATAATTGACCTAAGTTGAGAAAAGTTAAGAAAGTGTCCCCCTCGTCGTCCCTCCTTAATTCTCAGTGTTGGGCCTTTTCTTCATTTCCTTCTTCAAGGAAAGAAGGGCAGAAAGAAAAGAAAGAAATAGGGACGAAACCGCGGCAATCTCCCAATTTCCTCTCCCCCGCTTCGTTGTTTGAAACCCTACATTCTTCCTTTCCTCTCCAATCATGAAGCTTGTTAGGTATCTTCTTCTCTTTTTCTATTTTTGCCCTCTTTTTCTTCTCGATCTACATCCAAATGCCGTTTTTCATTTCTGAAATCTTCGTTTTCATACAGGTTTTTGATGAAGCTCAACAATGAGACTGTCTCTATCGAGCTCAAAAATGGAACTGTTGTCCATGGAACCATCACAGGTCTTTCTGCTTCTCTTTCTTTAAATCTTGTTAAACCCTAGATTTACCAACTTTGCGGCTCAGGGTTCTTTAACTTCCAACTTCTGTTCTATTTTCTTCTTTGAACTTCACTGCGTTGGAATTTGTACAACATTTCAGTATGTTCACCAGTGTACGACTCTCACTACTATTGCTTTCGTCTCACTTCCATCTCCCGACCTTTGAAAGCTAACGGAAGGGTTCTTTATCCCGCTCCCATTTTTAATTTTAAAAATTAGTATTCAACTTATGAGTTGCTTACGGCAAATTAAATTCCTTGTCTTCTGGACGTTGGGAGGATGAGATGTTTTTCTCTCTATTGTTTTTATTTTTATTATTTTCATTTTCAAAATAATTTGAACTTTTGATTACTCTCTACTGATGCTGAATATGCATTCTATTTCATGATATATTTGTAGATTTAAACAAATGTTTAAAATGTCCCGTCATTTTTTCATGGAATGACTCCTACAATTCATTCTTTCCCATTTGATTTGATGGAATTGTTTTTTCAACCAAGTGAATATACTTTTTTTTTTTTTTTTTGAAACGGAAACAAACCAAGTGAATATACTTCTACAATTAACTTGAGGTGAGAAACCTGCACTAGAATGATGTTACTATAGTCTGATTAAGCATGAACTTCTGCTGAACCCCAGCATTTTTGGACTCGGTAGCCCATATGCCATTCTTTGGTTAATTGTATGTGTGTTTTTAAATTTGTTTTGCATAAGAGACTATGCAATAACTGAAAGAGAAGCAACTTGTAACTGAACTGTGCCCAGTGGTGGAAACATAGTCAATTGAGCAGTCGCAAATTATATGCGCCTTTGTCCTCCTACACTGCCTCTAACTACATGAACTATTTTTAACCTTCCCTGGAATAGCAATAACTTAGTTTTGATTAATCTTCTTCTGAGTTCCATTAGTTTTGGGTTCTGTAGACCATTAGCCATTCTTACATGAATTTTTACCCTTTTTTATCTTCTGATGAGAGACTATGTTACAAGTGAAGCAAAAAGTCTAACCTAGGTTTAATCTTGGGGGGAGAAAACCCTAGGAGCTATAAAAAAAAGAGCCTTCTGATAAAAGTTAAATCATATTCATTAGTAGACTGTAACTACAACAGATTATCTTCTATTTGAAAAACCATCGTAAAAATGTGTATGGTACACTATTAAAAATAGAATCTAAGATAGATACTTTTTCTCTCAAAATATTTATAGAAGTAGTAGTGCAGATTTTATTTTACATCCAACTCATCAGGCTGTGAATGTTTTGAAAAATAATTGTAACCCAAGCTAGTTAGGCAAAAGATAAACCAGTTTGTTGAAAATGAAAGACCATCCTCTATAGACAAAAGGATAGTGGAGATAAAGGTAATTTTGGGATTACCCATTGGAATAATAGAGGAACAAACCAGGGGAGACAACCCAGTTTGGGAATTTTTTTCTAGATTCTCTTGGGGGGTTGAGGTTTCTATTAGTAGCCAACCTCACAAACATGTTAACCTTCCTAGGGGTGTCAAACATCCAAACTGATTTGACTTTACAAAGGCGTTTTCAGCTTTAGCAAGGTCTGAGAGAGTTTAGTGAAGGTGATCTTAGAGGACAAACAATTTAATGAATCAATGGATTCTACTTCTATGTCTTGGTCAGCTTCTAATTGAAAGGTATCGAACTTTCCTATAAAGTCAATCCAACTTTCCAATTTCCCTGTGAAAAGAGCCAACAAGCATTCCACAGTTATCCCCCAAGACTACCTATGGTTTTGGTTTCATTGTCGTTGTTTCTGGTTCTAGATGATCACTTTTCACAACTGTTTAAGAAGTAGCACATCATTTCTCTACTTACAAAAAGAGCTGACCAATGGAAGGGAAGTCCGACTCTATTTTAATGGGTGACTTACTGATTTGGTGAATTATGACTAGTTTGCATTTTGCTGTTGACAACCCCCTATACATCTTCCACTTAATGTATTTTTCTACGCTGCTGGTACTGAAACTAGTTATTTACCGGCAGAGTTTTTTTTCACAAGGAGTTGTAACAGAAGAGTTGAGACTCTTGTCATAACTTATGACTCATAATTTTAGTTGGTTACCTCTTTTGTTGGAGGATTTCAGTTGAGATTATACGCAATGTTTTAAAAGGCTAAAGGCAGCCTCTTCCAGCATAGCCCCAAGGTGAGGTGTTATGAGTTGTAAGTCTCTTTGGTTAAAAATATTTTACCAAATATTGTTAGGCAACACTTAATAATCATGTAAAAGTTAATAAAAAGAAAAAAGGAAAATCACTCGTCCCAATTTCCACCTAGACAGAAGTTCTAAAATGATATCTTTAACTTTACTAATATTATTTGATTGACTTCTCCTAGAAATATTAGATTGCGACAAACTAATATTATTCAATAAAATTATTACAAAGAGGTGTAAGTCTCTATCTATGCAATATGCTTGATGACCTACATTGCACTTTGCGTTGTGAAATCTTGTTTTCGACTATGATATGTTAATCAATGATTTGTTTTAAAAAAATTCAATGACATTTCATGAACTTAAAGTAGAAGTACGCACTCTTTTCTCTTAAAACCTAAGTATTGGTCAAGGTTAGAAGTCGCTGATGGGTTGATTTTGAGTGTTTTTCTTGTATTACTTAGGTGTGGATATCAGCATGAATACGCATTTGAAGGCTGTGAAGCTAACTCTAAAGGGAAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGAGGTAACAACATCAGATATTATATCCTACCTGACAGCTTGAATCTTGAAACTTTACTTGTTGAAGAGACACCCAGGGTCAAGCCCAAGAAACCAACTGCAGGTTTGTGTTCTTGCATTCTGGCCTGTACTTTATGGTCATTTTCTGCTGCAAGTCCAATTGTTTATACTGAATCATATCATTTGCTACTCATTATCAAATGTATTGCTTATGCATTTCTACACTATGCTCCAACTACAGGGAGGCCTTTGGGGCGGGGACGAGGGCGCGGCCGTGGACGTGGTCGTGGACGTGGACGCTAGATTTGATGCAGTTGTTTCAATTTTTGAGACCTGTAGTGTAAACACTTGCATTGTAGGGAAAGATTATGAATTTTGGGACACGAAAAAGTGGTATTGCAATTCACTGTTCAATCTCGTATGTAGTTTATTACAATGCTATTCGGTTGCTTTTCATATGATAGATGTAGCCTTGCTATGTTTTCTGGTGCTTGGGATCTGTTAATGATTTACTCTAATATTGTCACAATGATAAAACGAGTATGTCTCTAGATTGGAATCTCGGTTTTTACTTTCAACCCCAATAGATTTTGTAGTCATGCAGTACTTGA

mRNA sequence

ATTTGAAATAAACAAGCTCAATGAGAGTGATAAGCAAAAATTAGATGAGTGTCACCAACAATGAGAATTACACCATTGGCCATATTTGATTTTGTGATGCAATGTTTTAATTAATAACGCAAAGTTGGGCTCAAAAGATTAAAGATAATTGACCTAAGTTGAGAAAAGTTAAGAAAGTGTCCCCCTCGTCGTCCCTCCTTAATTCTCAGTGTTGGGCCTTTTCTTCATTTCCTTCTTCAAGGAAAGAAGGGCAGAAAGAAAAGAAAGAAATAGGGACGAAACCGCGGCAATCTCCCAATTTCCTCTCCCCCGCTTCGTTGTTTGAAACCCTACATTCTTCCTTTCCTCTCCAATCATGAAGCTTGTTAGGTTTTTGATGAAGCTCAACAATGAGACTGTCTCTATCGAGCTCAAAAATGGAACTGTTGTCCATGGAACCATCACAGGTGTGGATATCAGCATGAATACGCATTTGAAGGCTGTGAAGCTAACTCTAAAGGGAAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGAGGTAACAACATCAGATATTATATCCTACCTGACAGCTTGAATCTTGAAACTTTACTTGTTGAAGAGACACCCAGGGGAGGCCTTTGGGGCGGGGACGAGGGCGCGGCCGTGGACGTGGTCGTGGACGTGGACGCTAGATTTGATGCAGTTGTTTCAATTTTTGAGACCTGTAGTGTAAACACTTGCATTGTAGGGAAAGATTATGAATTTTGGGACACGAAAAAGTGGTATTGCAATTCACTGTTCAATCTCTCATGCAGTACTTGA

Coding sequence (CDS)

ATGAAGCTTGTTAGGTTTTTGATGAAGCTCAACAATGAGACTGTCTCTATCGAGCTCAAAAATGGAACTGTTGTCCATGGAACCATCACAGGTGTGGATATCAGCATGAATACGCATTTGAAGGCTGTGAAGCTAACTCTAAAGGGAAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGAGGTAACAACATCAGATATTATATCCTACCTGACAGCTTGAATCTTGAAACTTTACTTGTTGAAGAGACACCCAGGGGAGGCCTTTGGGGCGGGGACGAGGGCGCGGCCGTGGACGTGGTCGTGGACGTGGACGCTAGATTTGATGCAGTTGTTTCAATTTTTGAGACCTGTAGTGTAAACACTTGCATTGTAGGGAAAGATTATGAATTTTGGGACACGAAAAAGTGGTATTGCAATTCACTGTTCAATCTCTCATGCAGTACTTGA

Protein sequence

MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVVVDVDARFDAVVSIFETCSVNTCIVGKDYEFWDTKKWYCNSLFNLSCST

Homology

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BLAST of CsGy3G039480 vs. NCBI nr
Match: KXG26522.1 (hypothetical protein SORBI_3006G115000 [Sorghum bicolor])

HSP 1 Score: 177.9 bits (450), Expect = 2.5e-41
Identity = 89/101 (88.12%), Postives = 92/101 (91.09%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVEETP+  LWG      VDVV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEETPKESLWGVVAAVVVDVV 101

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BLAST of CsGy3G039480 vs. NCBI nr
Match: XP_004150106.1 (PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Cucumis sativus] >XP_008454659.1 PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Cucumis melo] >XP_022155676.1 small nuclear ribonucleoprotein SmD1b [Momordica charantia] >XP_022157762.1 small nuclear ribonucleoprotein SmD1b [Momordica charantia] >XP_022157763.1 small nuclear ribonucleoprotein SmD1b [Momordica charantia] >KGN59890.1 hypothetical protein Csa_3G851900 [Cucumis sativus])

HSP 1 Score: 171.8 bits (434), Expect = 1.8e-39
Identity = 86/86 (100.00%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVEETPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEETPR 86

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BLAST of CsGy3G039480 vs. NCBI nr
Match: XP_022963993.1 (small nuclear ribonucleoprotein SmD1b-like [Cucurbita moschata] >XP_023553601.1 small nuclear ribonucleoprotein SmD1b-like [Cucurbita pepo subsp. pepo])

HSP 1 Score: 171.8 bits (434), Expect = 1.8e-39
Identity = 86/86 (100.00%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVEETPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEETPR 86

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BLAST of CsGy3G039480 vs. NCBI nr
Match: XP_022931093.1 (small nuclear ribonucleoprotein SmD1b [Cucurbita moschata] >XP_022995872.1 small nuclear ribonucleoprotein SmD1b [Cucurbita maxima] >XP_023533992.1 small nuclear ribonucleoprotein SmD1b [Cucurbita pepo subsp. pepo])

HSP 1 Score: 171.8 bits (434), Expect = 1.8e-39
Identity = 86/86 (100.00%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVEETPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEETPR 86

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BLAST of CsGy3G039480 vs. NCBI nr
Match: XP_022967529.1 (small nuclear ribonucleoprotein SmD1a [Cucurbita maxima])

HSP 1 Score: 171.8 bits (434), Expect = 1.8e-39
Identity = 86/86 (100.00%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVEETPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEETPR 86

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BLAST of CsGy3G039480 vs. TAIR10
Match: AT3G07590.1 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 164.1 bits (414), Expect = 6.7e-41
Identity = 79/86 (91.86%), Postives = 85/86 (98.84%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVD+SMNTHLK VK++LKGKNPVT+DHLS+
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDVSMNTHLKTVKMSLKGKNPVTLDHLSL 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVE+TPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEDTPR 86

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BLAST of CsGy3G039480 vs. TAIR10
Match: AT4G02840.2 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 160.6 bits (405), Expect = 7.4e-40
Identity = 82/96 (85.42%), Postives = 86/96 (89.58%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTIT----------GVDISMNTHLKAVKLTLKGK 60
          MKLVRFLMKLNNETVSIELKNGT+VHGTIT          GVD+SMNTHLKAVKLTLKGK
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTIVHGTITDEYTRFYLNRGVDVSMNTHLKAVKLTLKGK 60

Query: 61 NPVTMDHLSVRGNNIRYYILPDSLNLETLLVEETPR 87
          NPVT+DHLSVRGNNIRYYILPDSLNLETLLVE+TPR
Sbjct: 61 NPVTLDHLSVRGNNIRYYILPDSLNLETLLVEDTPR 96

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BLAST of CsGy3G039480 vs. TAIR10
Match: AT1G20580.1 (Small nuclear ribonucleoprotein family protein)

HSP 1 Score: 44.7 bits (104), Expect = 5.9e-05
Identity = 19/71 (26.76%), Postives = 41/71 (57.75%), Query Frame = 0


Query: 4  VRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGN 63
          V+ L + +   V++ELK+G +  G++   + + N  L+ +  T K      ++H+ +RG+
Sbjct: 9  VKLLHEASGHIVTVELKSGELYRGSMIECEDNWNCQLEDITYTAKDGKVSQLEHVFIRGS 68

Query: 64 NIRYYILPDSL 75
           +R+ ++PD L
Sbjct: 69 KVRFMVIPDIL 79

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BLAST of CsGy3G039480 vs. TAIR10
Match: AT1G76300.1 (snRNP core protein SMD3)

HSP 1 Score: 43.9 bits (102), Expect = 1.0e-04
Identity = 19/71 (26.76%), Postives = 41/71 (57.75%), Query Frame = 0


Query: 4  VRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGN 63
          V+ L + +   VS+E+K+G +  G++   + + N  L+ +  T K      ++H+ +RG+
Sbjct: 9  VKLLHESSGHIVSVEMKSGELYRGSMIECEDNWNCQLENITYTAKDGKVSQLEHVFIRGS 68

Query: 64 NIRYYILPDSL 75
           +R+ ++PD L
Sbjct: 69 LVRFLVIPDML 79

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BLAST of CsGy3G039480 vs. Swiss-Prot
Match: sp|Q9SY09|SMD1B_ARATH (Small nuclear ribonucleoprotein SmD1b OS=Arabidopsis thaliana OX=3702 GN=SMD1B PE=3 SV=1)

HSP 1 Score: 168.7 bits (426), Expect = 4.9e-41
Identity = 82/86 (95.35%), Postives = 86/86 (100.00%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGT+VHGTITGVD+SMNTHLKAVKLTLKGKNPVT+DHLSV
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTIVHGTITGVDVSMNTHLKAVKLTLKGKNPVTLDHLSV 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVE+TPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEDTPR 86

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BLAST of CsGy3G039480 vs. Swiss-Prot
Match: sp|Q9SSF1|SMD1A_ARATH (Small nuclear ribonucleoprotein SmD1a OS=Arabidopsis thaliana OX=3702 GN=SMD1A PE=3 SV=1)

HSP 1 Score: 164.1 bits (414), Expect = 1.2e-39
Identity = 79/86 (91.86%), Postives = 85/86 (98.84%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKLNNETVSIELKNGTVVHGTITGVD+SMNTHLK VK++LKGKNPVT+DHLS+
Sbjct: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDVSMNTHLKTVKMSLKGKNPVTLDHLSL 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSLNLETLLVE+TPR
Sbjct: 61 RGNNIRYYILPDSLNLETLLVEDTPR 86

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BLAST of CsGy3G039480 vs. Swiss-Prot
Match: sp|O42661|SMD1_SCHPO (Small nuclear ribonucleoprotein Sm D1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=smd1 PE=1 SV=1)

HSP 1 Score: 136.3 bits (342), Expect = 2.7e-31
Identity = 64/86 (74.42%), Postives = 78/86 (90.70%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKL NETVSIELKNGT+VHGTIT VD+ MNTHLKAVK+T+KG+ PV ++ LS+
Sbjct: 1  MKLVRFLMKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSI 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPR 87
          RGNNIRYYILPDSL L+TLL++++ +
Sbjct: 61 RGNNIRYYILPDSLPLDTLLIDDSTK 86

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BLAST of CsGy3G039480 vs. Swiss-Prot
Match: sp|Q9VU02|SMD1_DROME (Probable small nuclear ribonucleoprotein Sm D1 OS=Drosophila melanogaster OX=7227 GN=SmD1 PE=1 SV=1)

HSP 1 Score: 136.0 bits (341), Expect = 3.5e-31
Identity = 63/95 (66.32%), Postives = 83/95 (87.37%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKL++ETV+IELKNGT +HGTITGVD++MNTHLK+V++T+K ++PV ++ LS+
Sbjct: 1  MKLVRFLMKLSHETVTIELKNGTQIHGTITGVDVAMNTHLKSVRMTIKNRDPVHLETLSI 60

Query: 61 RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEG 96
          RGNNIRY+ILPDSL LETLL+++TP+      D G
Sbjct: 61 RGNNIRYFILPDSLPLETLLIDDTPKSKTKKKDSG 95

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BLAST of CsGy3G039480 vs. Swiss-Prot
Match: sp|Q3ZC10|SMD1_BOVIN (Small nuclear ribonucleoprotein Sm D1 OS=Bos taurus OX=9913 GN=SNRPD1 PE=3 SV=1)

HSP 1 Score: 132.5 bits (332), Expect = 3.9e-30
Identity = 64/82 (78.05%), Postives = 76/82 (92.68%), Query Frame = 0


Query: 1  MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
          MKLVRFLMKL++ETV+IELKNGT VHGTITGVD+SMNTHLKAVK+TLK + PV ++ LS+
Sbjct: 1  MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSI 60

Query: 61 RGNNIRYYILPDSLNLETLLVE 83
          RGNNIRY+ILPDSL L+TLLV+
Sbjct: 61 RGNNIRYFILPDSLPLDTLLVD 82

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BLAST of CsGy3G039480 vs. TrEMBL
Match: tr|A0A0D9ZLZ3|A0A0D9ZLZ3_9ORYZ (Uncharacterized protein OS=Oryza glumipatula OX=40148 PE=4 SV=1)

HSP 1 Score: 179.9 bits (455), Expect = 4.3e-42
Identity = 90/101 (89.11%), Postives = 93/101 (92.08%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVE+TPRG LWG    A V VV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPRGNLWGVGADAVVAVV 101

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BLAST of CsGy3G039480 vs. TrEMBL
Match: tr|A0A0E0PAC9|A0A0E0PAC9_ORYRU (Uncharacterized protein OS=Oryza rufipogon OX=4529 PE=4 SV=1)

HSP 1 Score: 179.9 bits (455), Expect = 4.3e-42
Identity = 90/101 (89.11%), Postives = 93/101 (92.08%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVE+TPRG LWG    A V VV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPRGNLWGVGADAVVAVV 101

[Close]

BLAST of CsGy3G039480 vs. TrEMBL
Match: tr|A0A0E0H1Z2|A0A0E0H1Z2_ORYNI (Uncharacterized protein OS=Oryza nivara OX=4536 PE=4 SV=1)

HSP 1 Score: 179.9 bits (455), Expect = 4.3e-42
Identity = 90/101 (89.11%), Postives = 93/101 (92.08%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVE+TPRG LWG    A V VV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPRGNLWGVGADAVVAVV 101

[Close]

BLAST of CsGy3G039480 vs. TrEMBL
Match: tr|A0A0E0H1Z1|A0A0E0H1Z1_ORYNI (Uncharacterized protein OS=Oryza nivara OX=4536 PE=4 SV=1)

HSP 1 Score: 179.9 bits (455), Expect = 4.3e-42
Identity = 90/101 (89.11%), Postives = 93/101 (92.08%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVE+TPRG LWG    A V VV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEDTPRGNLWGVGADAVVAVV 101

[Close]

BLAST of CsGy3G039480 vs. TrEMBL
Match: tr|A0A1B6PLH0|A0A1B6PLH0_SORBI (Uncharacterized protein OS=Sorghum bicolor OX=4558 GN=SORBI_3006G115000 PE=4 SV=1)

HSP 1 Score: 177.9 bits (450), Expect = 1.6e-41
Identity = 89/101 (88.12%), Postives = 92/101 (91.09%), Query Frame = 0


Query: 1   MKLVRFLMKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSV 60
           MKLVRFLMKLNNETV+IELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSV
Sbjct: 1   MKLVRFLMKLNNETVTIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSV 60

Query: 61  RGNNIRYYILPDSLNLETLLVEETPRGGLWGGDEGAAVDVV 102
           RGNNIRYYILPDSLNLETLLVEETP+  LWG      VDVV
Sbjct: 61  RGNNIRYYILPDSLNLETLLVEETPKESLWGVVAAVVVDVV 101

The following BLAST results are available for this feature:

BLAST of CsGy3G039480 vs. NCBI nr


Match Name	E-value	Identity	Description
KXG26522.1	2.5e-41	88.12	hypothetical protein SORBI_3006G115000 [Sorghum bicolor]	[more]
XP_004150106.1	1.8e-39	100.00	PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Cucumis sativus] >XP_0084...	[more]
XP_022963993.1	1.8e-39	100.00	small nuclear ribonucleoprotein SmD1b-like [Cucurbita moschata] >XP_023553601.1 ...	[more]
XP_022931093.1	1.8e-39	100.00	small nuclear ribonucleoprotein SmD1b [Cucurbita moschata] >XP_022995872.1 small...	[more]
XP_022967529.1	1.8e-39	100.00	small nuclear ribonucleoprotein SmD1a [Cucurbita maxima]	[more]

BLAST of CsGy3G039480 vs. TAIR10


Match Name	E-value	Identity	Description
AT3G07590.1	6.7e-41	91.86	Small nuclear ribonucleoprotein family protein	[more]
AT4G02840.2	7.4e-40	85.42	Small nuclear ribonucleoprotein family protein	[more]
AT1G20580.1	5.9e-05	26.76	Small nuclear ribonucleoprotein family protein	[more]
AT1G76300.1	1.0e-04	26.76	snRNP core protein SMD3	[more]

BLAST of CsGy3G039480 vs. Swiss-Prot


Match Name	E-value	Identity	Description
sp\|Q9SY09\|SMD1B_ARATH	4.9e-41	95.35	Small nuclear ribonucleoprotein SmD1b OS=Arabidopsis thaliana OX=3702 GN=SMD1B P...	[more]
sp\|Q9SSF1\|SMD1A_ARATH	1.2e-39	91.86	Small nuclear ribonucleoprotein SmD1a OS=Arabidopsis thaliana OX=3702 GN=SMD1A P...	[more]
sp\|O42661\|SMD1_SCHPO	2.7e-31	74.42	Small nuclear ribonucleoprotein Sm D1 OS=Schizosaccharomyces pombe (strain 972 /...	[more]
sp\|Q9VU02\|SMD1_DROME	3.5e-31	66.32	Probable small nuclear ribonucleoprotein Sm D1 OS=Drosophila melanogaster OX=722...	[more]
sp\|Q3ZC10\|SMD1_BOVIN	3.9e-30	78.05	Small nuclear ribonucleoprotein Sm D1 OS=Bos taurus OX=9913 GN=SNRPD1 PE=3 SV=1	[more]

BLAST of CsGy3G039480 vs. TrEMBL


Match Name	E-value	Identity	Description
tr\|A0A0D9ZLZ3\|A0A0D9ZLZ3_9ORYZ	4.3e-42	89.11	Uncharacterized protein OS=Oryza glumipatula OX=40148 PE=4 SV=1	[more]
tr\|A0A0E0PAC9\|A0A0E0PAC9_ORYRU	4.3e-42	89.11	Uncharacterized protein OS=Oryza rufipogon OX=4529 PE=4 SV=1	[more]
tr\|A0A0E0H1Z2\|A0A0E0H1Z2_ORYNI	4.3e-42	89.11	Uncharacterized protein OS=Oryza nivara OX=4536 PE=4 SV=1	[more]
tr\|A0A0E0H1Z1\|A0A0E0H1Z1_ORYNI	4.3e-42	89.11	Uncharacterized protein OS=Oryza nivara OX=4536 PE=4 SV=1	[more]
tr\|A0A1B6PLH0\|A0A1B6PLH0_SORBI	1.6e-41	88.12	Uncharacterized protein OS=Sorghum bicolor OX=4558 GN=SORBI_3006G115000 PE=4 SV=...	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **Biological Process**
Term	Definition
GO:0000387	spliceosomal snRNP assembly
GO:0006396	RNA processing

Vocabulary: **INTERPRO**
Term	Definition
IPR010920	LSM_dom_sf
IPR034102	Sm_D1
IPR027141	LSm4/Sm_D1/D3
IPR001163	LSM_dom_euk/arc

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0000245	spliceosomal complex assembly
biological_process	GO:0000387	spliceosomal snRNP assembly
biological_process	GO:0006396	RNA processing
cellular_component	GO:0071013	catalytic step 2 spliceosome
cellular_component	GO:0000243	commitment complex
cellular_component	GO:0034715	pICln-Sm protein complex
cellular_component	GO:0071011	precatalytic spliceosome
cellular_component	GO:0071010	prespliceosome
cellular_component	GO:0034719	SMN-Sm protein complex
cellular_component	GO:0097526	spliceosomal tri-snRNP complex
cellular_component	GO:0005689	U12-type spliceosomal complex
cellular_component	GO:0005685	U1 snRNP
cellular_component	GO:0005686	U2 snRNP
cellular_component	GO:0005687	U4 snRNP
cellular_component	GO:0005682	U5 snRNP
molecular_function	GO:0003723	RNA binding

Relationships

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


Feature Name	Unique Name	Type
CsGy3G039480.1	CsGy3G039480.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber Gy14 genome (v2)
Date Performed: 2018-09-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001163	LSM domain, eukaryotic/archaea-type	SMART	SM00651	Sm3	coord: 5..70 e-value: 1.1E-16 score: 71.5
IPR001163	LSM domain, eukaryotic/archaea-type	PFAM	PF01423	LSM	coord: 5..69 e-value: 7.4E-18 score: 63.9
None	No IPR available	GENE3D	G3DSA:2.30.30.100		coord: 1..85 e-value: 9.4E-35 score: 120.0
None	No IPR available	PANTHER	PTHR23338:SF18	SMALL NUCLEAR RIBONUCLEOPROTEIN SM D1	coord: 1..86
IPR027141	Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3	PANTHER	PTHR23338	SMALL NUCLEAR RIBONUCLEOPROTEIN SM	coord: 1..86
IPR034102	Small nuclear ribonucleoprotein D1	CDD	cd01724	Sm_D1	coord: 2..86 e-value: 6.42843E-60 score: 181.654
IPR010920	LSM domain superfamily	SUPERFAMILY	SSF50182	Sm-like ribonucleoproteins	coord: 4..86

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
CsGy3G039480	Cla023415	Watermelon (97103) v1	cgybwmB256
CsGy3G039480	Csa3G851900	Cucumber (Chinese Long) v2	cgybcuB110
CsGy3G039480	MELO3C018220	Melon (DHL92) v3.5.1	cgybmeB185
CsGy3G039480	CSPI03G42070	Wild cucumber (PI 183967)	cgybcpiB111
CsGy3G039480	Lsi04G012930	Bottle gourd (USVL1VR-Ls)	cgyblsiB177
CsGy3G039480	MELO3C018220.2	Melon (DHL92) v3.6.1	cgybmedB186
CsGy3G039480	CsaV3_3G044470	Cucumber (Chinese Long) v3	cgybcucB117
CsGy3G039480	Cla97C11G224500	Watermelon (97103) v2	cgybwmbB185
CsGy3G039480	Bhi09G001705	Wax gourd	cgybwgoB330

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
CsGy3G039480	Cucurbita maxima (Rimu)	cgybcmaB288
CsGy3G039480	Cucurbita maxima (Rimu)	cgybcmaB363
CsGy3G039480	Cucurbita moschata (Rifu)	cgybcmoB261
CsGy3G039480	Cucurbita moschata (Rifu)	cgybcmoB334
CsGy3G039480	Cucurbita pepo (Zucchini)	cgybcpeB392
CsGy3G039480	Cucurbita pepo (Zucchini)	cgybcpeB439
CsGy3G039480	Watermelon (Charleston Gray)	cgybwcgB186
CsGy3G039480	Silver-seed gourd	carcgybB0321
CsGy3G039480	Silver-seed gourd	carcgybB0892
CsGy3G039480	Watermelon (97103) v2	cgybwmbB194
CsGy3G039480	Wax gourd	cgybwgoB323