Cla023415 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla023415
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Small nuclear ribonucleoprotein Sm D1 (AHRD V1 ***- B6TXH2_MAIZE); contains Interpro domain(s) IPR006649 Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core
Location	Chr11 : 20548952 .. 20552102 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDS

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

ATGAAGCTCAACAATGAGACTGTCTCAATCGAGCTCAAAAATGGAACTGTTGTCCACGGCACTATCACAGGTCTCTCTAACTCTCTTTCTTAAATCTTGTTAAACCCTAGATTTACCAACTTTGCGGCCGTGGTTTTTCTCCCAACTTCCAACTTCCAACTTCCAACTTCCAACTTCCATTCCATTTTCTTCTTTGAACTTCACTGTATTAGAAGTTGTAGAATATTTCAGTATGTCCGCCAGTGTACAACTCTCACTATTCTTTACTTTCGTCTCATGACCATCTGTGAACGTTTGAAAGCTAACTGAAGGGTTCTGGCAAGCGTGCACTTGGAGAACCACCTTCCCACTCCCATTTTTAAGTTTAAAAATTAGTATTATCATCAATTCTTTTAAAAGTAAATTAGTATTGAACTCATGGGTTGCTTACGTGAAATTAAATCCTTGTCTTTTGGGTGTTGGGAGGATGAGACATTTTCTCTGTATATTTTTTATTGTATTAATTTAAATTATCATAACAATTTGAACTATTGATTGCTGTCTACTGATGCTGAATATCAATTCTATTTCATGACATATCAGTAGATTTAAACAAATGCTTAGAATGTCCTCTCACATTTTGATTTAATGTCTTCTACAATGCCTTCTTTCCCCCTTGTTCTGTAGGGAATGTTTCTTAAACCAAGTGAATATACTTAAACTTTAACTTGTACTGTTTTTTATCTGCACTAGAATGATATTAGCTTAGTCTGATTAAACATTAACTTCTGCTGAACCCCAGCATTTTTGGGATAAGGACTACCCAATAAATGAAAGAGAGGCAACTTATAACTTGAACTGTGCCCACTGCCCAGTGGTGGAAACATCAATTGAACGCAAATAACCTTTATTCGTCATTAGCCTTCATCCTCGTACACTACCTCTATCACCATCACCTATAACTTGAACTGTTTTTCATCTGCCCTAGAATGGCATTAACTTAGTCTGATTAAACAAAAATTCTGCCTAACTCCATTGTTTTTTGGTTCTGTAGCCCATATTCCATTCTTTTGTGAATTGCGACTATTTTCTTTTCTTGTGAAAGAGTATGGTACAACTAAAAGAGAAGCTAAAAGACTAATCTAGGGTAGCCTAGGGAATGGTAGAGAAAACCCTGCCCATGGAGCTATAGAAGATGTGCCTTCCAATAAGAGTTAAATCATATTCATAAGAGGACTCTAATTACAATAGAATATCTTGTATTTGAAAAACTATTGTAAAAATGTGTGTGGTACACTGTTACAAATAGAATCTAAAATAGATATTTTTTTCCCTTAAAAAAATTGTAGAAGCACAATTCCGAAAGATTTTATCTTCACATATAAGCCACCAGGCTGTCGACTGCTTCCAAAAATGACCGTCAACCAAGCTAGATAGGCAAAAGATAAACCATTTTTGTTGAAAATGAAAGACCATCCTCTACAGAAAAAAGGACAGTGGAGGTAAAGGTAATTTTGGGATTCCCCGTTGGAATAACAGAGGAACAAACCAGGGGAGAGAACCCAGTTTGGGAACCTTTTTTGAGCTTGTCTTGGGATGTTGAGGTCTTCCTAGGCGTGTCAAACTTCCAAACTGATTTAACCGAAGGCGTTTTGAGCTTTAGCAAGGTCTCAGAGAGTTTAGTAAGGTGATTTTAGAGAAGAGACAATTGAATGAATCAATGGTTTCTACCTCTATGTCTTCGACAGCTTCTAATTGAACTGTAACATTCTTTCCTATGAAGGCAATCCAACTGACAATTTCTCTATGAAAGGAGCAAACAAGCACTCCACAATTATCCCCCAAAATTACCTAAGGATATGGTTTTGGTTTCATTGTCTATTTTTCTGGTTTGACCCCATAGATGCCAACCATCACTTTTCATAACTATTTAAGATGTAGGGCATTATTTCTCTACTTCTGTAAATATCCAATGGAAGGGAAGTCCAATTCCATTTTAATGGGTGCCTTAGGATTTGGTGAATTATGATTATATTGCATTTTGTTGTAGACAACAACCCTCTATACCTCTTTTGTTGGAGGACTTTAGTTTAGATTATAAGCCATGTTTTAATAGGCTAAAGGCAGTCCTCTGGAAGAGACGAGGTGTAGCCTCATGGTGTTATGAAGCATTAAGTCTCAAATTTGATTAATCTTTTTTTACCAAGTATTGCTAAACAAAACTTAATAATCATGTTAAAGTTAAAAGAAAAAAAGAAAAATCACTCTTCCCAATTTCCACCTGGACAAAAATTCTAAAATGATATCTTTTACCTCACTACTATTATCCGATTGACTTATCCTAGAAATTTTAGACTGTGACAAAATAATATTATTCGACAAATTATTACAAAGAGGTGTAAGCCTCAATACCTTTTGAAAACATTGGCTATAAATAAGTGTCTCTATATATGCAATATGCTTGATGACCTATATTGCACTTATGCCTTGTGAAATCTTGATTTTGACTGAAGCATCTAAGTTACTTTACCTGTTTCATCTGTGTTCGACAAATTATTTCTAAGACATTCTCTAGCGCTACTTAGATGAATATCATTGAGCAACACTACATCATTGCATCTGCAAGTGTAGATGTAGTAATTTTCAATGATATTACGTTCATTAATTCTTTGTTTCAATTCAATGACACTGCATCAACTTAAAGTAGAAGTATGTACTCTTTTTCTCTTAAAACCTAAGTATTGGTCGAGGTTAGAAGTCACATATGGTTGATTTTGAGCGGTTTTTCTTGTATTACTTAGGTGTGGATATCAGCATGAATACACATTTGAAGGCTGTGAAACTTACTCTAAAGGGGAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGGGGTAACAACATCAGATATTATATTCTACCCGACAGCTTGAATCTTGAGACTTTACTTGTTGAAGAGACACCCAGGGTCAAGCCCAAGAAACCAACTGCAGGTATGTCCTGTCCTTGCATTCTGGCATGTACTTTAGTCAAATTGTTTATACTGAATCATATGCTATCCATTATCAAATGTGTTGCTTATGCATTTCTACACTCTACTCCAACTACAGGGAGACCTTTGGGACGTGGACGAGGACGTGGCCGTGGGCGTGGTCGTGGGCGTGGACGCTAG

mRNA sequence

ATGAAGCTCAACAATGAGACTGTCTCAATCGAGCTCAAAAATGGAACTGTTGTCCACGGCACTATCACAGGTGTGGATATCAGCATGAATACACATTTGAAGGCTGTGAAACTTACTCTAAAGGGGAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGGGGTAACAACATCAGATATTATATTCTACCCGACAGCTTGAATCTTGAGACTTTACTTGTTGAAGAGACACCCAGGGTCAAGCCCAAGAAACCAACTGCAGGGAGACCTTTGGGACGTGGACGAGGACGTGGCCGTGGGCGTGGTCGTGGGCGTGGACGCTAG

Coding sequence (CDS)

ATGAAGCTCAACAATGAGACTGTCTCAATCGAGCTCAAAAATGGAACTGTTGTCCACGGCACTATCACAGGTGTGGATATCAGCATGAATACACATTTGAAGGCTGTGAAACTTACTCTAAAGGGGAAAAATCCAGTTACCATGGATCATTTAAGTGTGAGGGGTAACAACATCAGATATTATATTCTACCCGACAGCTTGAATCTTGAGACTTTACTTGTTGAAGAGACACCCAGGGTCAAGCCCAAGAAACCAACTGCAGGGAGACCTTTGGGACGTGGACGAGGACGTGGCCGTGGGCGTGGTCGTGGGCGTGGACGCTAG

Protein sequence

MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRYYILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR

Homology

[Close]

BLAST of Cla023415 vs. Swiss-Prot
Match: SMD1_MACFA (Small nuclear ribonucleoprotein Sm D1 OS=Macaca fascicularis GN=SNRPD1 PE=3 SV=1)

HSP 1 Score: 160.6 bits (405), Expect = 9.4e-39
Identity = 79/107 (73.83%), Postives = 90/107 (84.11%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKL++ETV+IELKNGT VHGTITGVD+SMNTHLKAVK+TLK + PV ++ LS+RGNNIRY
Sbjct: 8   MKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           +ILPDSL L+TLLV+  P+VK KK  A    GRGRGRGRGRGRGRGR
Sbjct: 68  FILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. Swiss-Prot
Match: SMD1_MOUSE (Small nuclear ribonucleoprotein Sm D1 OS=Mus musculus GN=Snrpd1 PE=1 SV=1)

HSP 1 Score: 160.6 bits (405), Expect = 9.4e-39
Identity = 79/107 (73.83%), Postives = 90/107 (84.11%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKL++ETV+IELKNGT VHGTITGVD+SMNTHLKAVK+TLK + PV ++ LS+RGNNIRY
Sbjct: 8   MKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           +ILPDSL L+TLLV+  P+VK KK  A    GRGRGRGRGRGRGRGR
Sbjct: 68  FILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. Swiss-Prot
Match: SMD1_BOVIN (Small nuclear ribonucleoprotein Sm D1 OS=Bos taurus GN=SNRPD1 PE=3 SV=1)

HSP 1 Score: 160.6 bits (405), Expect = 9.4e-39
Identity = 79/107 (73.83%), Postives = 90/107 (84.11%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKL++ETV+IELKNGT VHGTITGVD+SMNTHLKAVK+TLK + PV ++ LS+RGNNIRY
Sbjct: 8   MKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           +ILPDSL L+TLLV+  P+VK KK  A    GRGRGRGRGRGRGRGR
Sbjct: 68  FILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. Swiss-Prot
Match: SMD1_HUMAN (Small nuclear ribonucleoprotein Sm D1 OS=Homo sapiens GN=SNRPD1 PE=1 SV=1)

HSP 1 Score: 160.6 bits (405), Expect = 9.4e-39
Identity = 79/107 (73.83%), Postives = 90/107 (84.11%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKL++ETV+IELKNGT VHGTITGVD+SMNTHLKAVK+TLK + PV ++ LS+RGNNIRY
Sbjct: 8   MKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           +ILPDSL L+TLLV+  P+VK KK  A    GRGRGRGRGRGRGRGR
Sbjct: 68  FILPDSLPLDTLLVDVEPKVKSKKREAVAGRGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. Swiss-Prot
Match: SMD1_SCHPO (Small nuclear ribonucleoprotein Sm D1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=smd1 PE=1 SV=1)

HSP 1 Score: 151.4 bits (381), Expect = 5.7e-36
Identity = 75/108 (69.44%), Postives = 87/108 (80.56%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKL NETVSIELKNGT+VHGTIT VD+ MNTHLKAVK+T+KG+ PV ++ LS+RGNNIRY
Sbjct: 8   MKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGREPVPVETLSIRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRG-RGRGRGRGR 108
           YILPDSL L+TLL++++ + K KK    R  GRGRGRG RGRGRG  R
Sbjct: 68  YILPDSLPLDTLLIDDSTKPKQKKKEVVRGRGRGRGRGTRGRGRGASR 115

[Close]

BLAST of Cla023415 vs. TrEMBL
Match: A0A0A0LD16_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_3G851900 PE=4 SV=1)

HSP 1 Score: 217.6 bits (553), Expect = 7.2e-54
Identity = 107/107 (100.00%), Postives = 107/107 (100.00%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. TrEMBL
Match: U5DA74_AMBTC (Uncharacterized protein OS=Amborella trichopoda GN=AMTR_s00061p00127560 PE=4 SV=1)

HSP 1 Score: 214.9 bits (546), Expect = 4.7e-53
Identity = 105/107 (98.13%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. TrEMBL
Match: F6I591_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VIT_19s0015g01330 PE=4 SV=1)

HSP 1 Score: 214.5 bits (545), Expect = 6.1e-53
Identity = 104/107 (97.20%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVTMDHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTMDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDS+NLETLLVEETPRVKPKKPTAGRP+GRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSINLETLLVEETPRVKPKKPTAGRPMGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. TrEMBL
Match: B9S445_RICCO (Small nuclear ribonucleoprotein sm d1, putative OS=Ricinus communis GN=RCOM_0558720 PE=4 SV=1)

HSP 1 Score: 214.5 bits (545), Expect = 6.1e-53
Identity = 104/107 (97.20%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGT+VHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTIVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. TrEMBL
Match: A0A124SCN9_CYNCS (Like-Sm (LSM) domain-containing protein (Fragment) OS=Cynara cardunculus var. scolymus GN=Ccrd_003535 PE=4 SV=1)

HSP 1 Score: 214.2 bits (544), Expect = 8.0e-53
Identity = 104/107 (97.20%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 42  MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRY 101

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRP+GRGRGRGRGRGRGRGR
Sbjct: 102 YILPDSLNLETLLVEETPRVKPKKPTAGRPMGRGRGRGRGRGRGRGR 148

[Close]

BLAST of Cla023415 vs. NCBI nr
Match: gi|449464778|ref|XP_004150106.1| (PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Cucumis sativus])

HSP 1 Score: 217.6 bits (553), Expect = 1.0e-53
Identity = 107/107 (100.00%), Postives = 107/107 (100.00%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. NCBI nr
Match: gi|823148065|ref|XP_012473940.1| (PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Gossypium raimondii])

HSP 1 Score: 214.9 bits (546), Expect = 6.7e-53
Identity = 105/107 (98.13%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVTMDHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTMDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAG+PLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGKPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. NCBI nr
Match: gi|586775950|ref|XP_006857628.1| (PREDICTED: small nuclear ribonucleoprotein Sm D1 [Amborella trichopoda])

HSP 1 Score: 214.9 bits (546), Expect = 6.7e-53
Identity = 105/107 (98.13%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. NCBI nr
Match: gi|698486337|ref|XP_009789901.1| (PREDICTED: small nuclear ribonucleoprotein Sm D1 [Nicotiana sylvestris])

HSP 1 Score: 214.9 bits (546), Expect = 6.7e-53
Identity = 104/107 (97.20%), Postives = 107/107 (100.00%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGTVVHGTITGVD+SMNTHLKAVKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTVVHGTITGVDVSMNTHLKAVKLTLKGKNPVTLDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAG+PLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGKPLGRGRGRGRGRGRGRGR 114

[Close]

BLAST of Cla023415 vs. NCBI nr
Match: gi|255559488|ref|XP_002520764.1| (PREDICTED: small nuclear ribonucleoprotein Sm D1 [Ricinus communis])

HSP 1 Score: 214.5 bits (545), Expect = 8.8e-53
Identity = 104/107 (97.20%), Postives = 106/107 (99.07%), Query Frame = 1


Query: 1   MKLNNETVSIELKNGTVVHGTITGVDISMNTHLKAVKLTLKGKNPVTMDHLSVRGNNIRY 60
           MKLNNETVSIELKNGT+VHGTITGVDISMNTHLK VKLTLKGKNPVT+DHLSVRGNNIRY
Sbjct: 8   MKLNNETVSIELKNGTIVHGTITGVDISMNTHLKTVKLTLKGKNPVTLDHLSVRGNNIRY 67

Query: 61  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 108
           YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR
Sbjct: 68  YILPDSLNLETLLVEETPRVKPKKPTAGRPLGRGRGRGRGRGRGRGR 114

The following BLAST results are available for this feature:

BLAST of Cla023415 vs. Swiss-Prot


Match Name	E-value	Identity	Description
SMD1_MACFA	9.4e-39	73.83	Small nuclear ribonucleoprotein Sm D1 OS=Macaca fascicularis GN=SNRPD1 PE=3 SV=1	[more]
SMD1_MOUSE	9.4e-39	73.83	Small nuclear ribonucleoprotein Sm D1 OS=Mus musculus GN=Snrpd1 PE=1 SV=1	[more]
SMD1_BOVIN	9.4e-39	73.83	Small nuclear ribonucleoprotein Sm D1 OS=Bos taurus GN=SNRPD1 PE=3 SV=1	[more]
SMD1_HUMAN	9.4e-39	73.83	Small nuclear ribonucleoprotein Sm D1 OS=Homo sapiens GN=SNRPD1 PE=1 SV=1	[more]
SMD1_SCHPO	5.7e-36	69.44	Small nuclear ribonucleoprotein Sm D1 OS=Schizosaccharomyces pombe (strain 972 /...	[more]

BLAST of Cla023415 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LD16_CUCSA	7.2e-54	100.00	Uncharacterized protein OS=Cucumis sativus GN=Csa_3G851900 PE=4 SV=1	[more]
U5DA74_AMBTC	4.7e-53	98.13	Uncharacterized protein OS=Amborella trichopoda GN=AMTR_s00061p00127560 PE=4 SV=...	[more]
F6I591_VITVI	6.1e-53	97.20	Putative uncharacterized protein OS=Vitis vinifera GN=VIT_19s0015g01330 PE=4 SV=...	[more]
B9S445_RICCO	6.1e-53	97.20	Small nuclear ribonucleoprotein sm d1, putative OS=Ricinus communis GN=RCOM_0558...	[more]
A0A124SCN9_CYNCS	8.0e-53	97.20	Like-Sm (LSM) domain-containing protein (Fragment) OS=Cynara cardunculus var. sc...	[more]

BLAST of Cla023415 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|449464778\|ref\|XP_004150106.1\|	1.0e-53	100.00	PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Cucumis sativus]	[more]
gi\|823148065\|ref\|XP_012473940.1\|	6.7e-53	98.13	PREDICTED: small nuclear ribonucleoprotein Sm D1-like [Gossypium raimondii]	[more]
gi\|586775950\|ref\|XP_006857628.1\|	6.7e-53	98.13	PREDICTED: small nuclear ribonucleoprotein Sm D1 [Amborella trichopoda]	[more]
gi\|698486337\|ref\|XP_009789901.1\|	6.7e-53	97.20	PREDICTED: small nuclear ribonucleoprotein Sm D1 [Nicotiana sylvestris]	[more]
gi\|255559488\|ref\|XP_002520764.1\|	8.8e-53	97.20	PREDICTED: small nuclear ribonucleoprotein Sm D1 [Ricinus communis]	[more]

Annotated Terms

The following terms have been associated with this gene:

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

Vocabulary: **Biological Process**
Term	Definition
GO:0006396	RNA processing

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006396	RNA processing
biological_process	GO:0000245	spliceosomal complex assembly
biological_process	GO:0000387	spliceosomal snRNP assembly
cellular_component	GO:0005732	small nucleolar ribonucleoprotein complex
cellular_component	GO:0005774	vacuolar membrane
cellular_component	GO:0005682	U5 snRNP
cellular_component	GO:0005687	U4 snRNP
cellular_component	GO:0005686	U2 snRNP
cellular_component	GO:0005685	U1 snRNP
cellular_component	GO:0005689	U12-type spliceosomal complex
cellular_component	GO:0097526	spliceosomal tri-snRNP complex
cellular_component	GO:0034719	SMN-Sm protein complex
cellular_component	GO:0071011	precatalytic spliceosome
cellular_component	GO:0071010	prespliceosome
cellular_component	GO:0030529	intracellular ribonucleoprotein complex
cellular_component	GO:0034715	pICln-Sm protein complex
cellular_component	GO:0005730	nucleolus
cellular_component	GO:0016607	nuclear speck
cellular_component	GO:0005829	cytosol
cellular_component	GO:0000243	commitment complex
cellular_component	GO:0071013	catalytic step 2 spliceosome
cellular_component	GO:0019013	viral nucleocapsid
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003674	molecular_function
molecular_function	GO:0003723	RNA binding

Unigene

This gene is associated with the following unigenes:


Unigene Name	Analysis Name	Sequence type in Unigene
WMU10537	watermelon unigene v2 vs TrEMBL	transcribed_cluster
WMU31786	watermelon unigene v2 vs TrEMBL	transcribed_cluster
WMU39737	watermelon EST collection version 2.0	transcribed_cluster

Relationships

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


Feature Name	Unique Name	Type
Cla023415	Cla023415.1	mRNA

The following transcribed_cluster feature(s) are associated with this gene:


Feature Name	Unique Name	Type
WMU39737	WMU39737	transcribed_cluster
WMU31786	WMU31786	transcribed_cluster
WMU10537	WMU10537	transcribed_cluster

InterPro

Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001163	LSM domain, eukaryotic/archaea-type	PFAM	PF01423	LSM	coord: 2..62 score: 9.6
IPR001163	LSM domain, eukaryotic/archaea-type	SMART	SM00651	Sm3	coord: 1..63 score: 3.1
IPR010920	LSM domain	unknown	SSF50182	Sm-like ribonucleoproteins	coord: 2..106 score: 9.31
IPR027141	Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3	PANTHER	PTHR23338	SMALL NUCLEAR RIBONUCLEOPROTEIN SM	coord: 1..107 score: 1.9
None	No IPR available	GENE3D	G3DSA:2.30.30.100		coord: 1..74 score: 3.9

Synteny

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


Gene	Orthologue	Organism	Block
Cla023415	Cla97C11G224500	Watermelon (97103) v2	wmwmbB358
Cla023415	Csa3G851900	Cucumber (Chinese Long) v2	cuwmB274
Cla023415	CSPI03G42070	Wild cucumber (PI 183967)	cpiwmB275
Cla023415	Cucsa.341710	Cucumber (Gy14) v1	cgywmB619
Cla023415	Lsi04G012930	Bottle gourd (USVL1VR-Ls)	lsiwmB340
Cla023415	CsGy3G039480	Cucumber (Gy14) v2	cgybwmB256
Cla023415	MELO3C018220.2	Melon (DHL92) v3.6.1	medwmB378
Cla023415	CsaV3_3G044470	Cucumber (Chinese Long) v3	cucwmB283
Cla023415	Bhi09G001705	Wax gourd	wgowmB643

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla023415	Cucumber (Gy14) v1	cgywmB209
Cla023415	Cucurbita maxima (Rimu)	cmawmB037
Cla023415	Cucurbita maxima (Rimu)	cmawmB213
Cla023415	Cucurbita maxima (Rimu)	cmawmB463
Cla023415	Cucurbita moschata (Rifu)	cmowmB029
Cla023415	Cucurbita moschata (Rifu)	cmowmB201
Cla023415	Cucurbita moschata (Rifu)	cmowmB457
Cla023415	Wild cucumber (PI 183967)	cpiwmB082
Cla023415	Melon (DHL92) v3.5.1	mewmB179
Cla023415	Melon (DHL92) v3.5.1	mewmB384
Cla023415	Watermelon (Charleston Gray)	wcgwmB103
Cla023415	Watermelon (Charleston Gray)	wcgwmB248
Cla023415	Cucumber (Chinese Long) v2	cuwmB075
Cla023415	Cucurbita pepo (Zucchini)	cpewmB527
Cla023415	Cucurbita pepo (Zucchini)	cpewmB581
Cla023415	Cucurbita pepo (Zucchini)	cpewmB775
Cla023415	Bottle gourd (USVL1VR-Ls)	lsiwmB219
Cla023415	Cucumber (Gy14) v2	cgybwmB077
Cla023415	Melon (DHL92) v3.6.1	medwmB175
Cla023415	Silver-seed gourd	carwmB0304
Cla023415	Silver-seed gourd	carwmB0908
Cla023415	Silver-seed gourd	carwmB0951
Cla023415	Cucumber (Chinese Long) v3	cucwmB088
Cla023415	Watermelon (97103) v2	wmwmbB370
Cla023415	Watermelon (97103) v1	wmwmB095