Cucsat.G11304 (gene) Cucumber (B10) v3

Overview
NameCucsat.G11304
Typegene
OrganismCucumis sativus L. var. sativus cv B10 (Cucumber (B10) v3)
DescriptionNuclear nucleic acid-binding protein C1D
Locationctg1798: 688338 .. 690776 (+)
RNA-Seq ExpressionCucsat.G11304
SyntenyCucsat.G11304
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

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

Coding sequence (CDS)

ATGGAGGGAGGTGTTCGAGATTTCGCTGTTGTGCCGGAGAAAGTGATGGATTCAGTGAAGACGACATTGGACAATGTAGAACAAGTCCAAACTCACCTTATTTCCTTCTTGTCTATCGCCGAGCCTGACGTCCTTGCTCAAATGCAGCCTCTCCAACGGGCTCAGTCTATGCTTTTGCTTGCTAGAGTCACTACCACTCTCTTCGCATTGAAGTTGAGGTGTAGCGGAGTTCATCTTGATGATCATCCTATCAAATCAGAGCTTGTAATTATTCTCATACCTTGTATCTGGAGAGATTAA

Protein sequence

MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLLARVTTTLFALKLRCSGVHLDDHPIKSELVIILIPCIWRD
Homology
[Close]
BLAST of Cucsat.G11304 vs. ExPASy Swiss-Prot
Match: Q5XJ97 (Nuclear nucleic acid-binding protein C1D OS=Danio rerio OX=7955 GN=c1d PE=2 SV=1)

HSP 1 Score: 44.3 bits (103), Expect = 9.4e-04
Identity = 25/87 (28.74%), Postives = 48/87 (55.17%), Query Frame = 0 

Query: 2  EGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLLA 61
          +  V D+   P ++ D++     ++  VQ  + + +S++  D L ++ PL++A+  L+ A
Sbjct: 4  DAAVEDY---PTEIEDNLNDFDSSLSSVQNMVQTLVSVSRSDRLLKLDPLEQAKLDLMSA 63

Query: 62 RVTTTLFALKLRCSGVHLDDHPIKSEL 89
              ++F + L   GV+  DHPIK EL
Sbjct: 64 YALNSMFWMYLVTQGVNPKDHPIKQEL 87

[Close]
BLAST of Cucsat.G11304 vs. NCBI nr
Match: XP_004145496.1 (nuclear nucleic acid-binding protein C1D [Cucumis sativus] >KGN55423.1 hypothetical protein Csa_012234 [Cucumis sativus])

HSP 1 Score: 170 bits (430), Expect = 3.51e-51
Identity = 88/88 (100.00%), Postives = 88/88 (100.00%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALKLRCSGVHLDDHPIKSEL
Sbjct: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. NCBI nr
Match: XP_008452844.1 (PREDICTED: nuclear nucleic acid-binding protein C1D [Cucumis melo] >KAA0064576.1 nuclear nucleic acid-binding protein C1D [Cucumis melo var. makuwa] >TYK20014.1 nuclear nucleic acid-binding protein C1D [Cucumis melo var. makuwa])

HSP 1 Score: 165 bits (418), Expect = 2.32e-49
Identity = 85/88 (96.59%), Postives = 87/88 (98.86%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVKTTLDNVE VQTHLISFLSIAEP+VLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEHVQTHLISFLSIAEPEVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALKLRC+GVHLDDHPIKSEL
Sbjct: 61 ARVTTTLFALKLRCNGVHLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. NCBI nr
Match: XP_038897508.1 (nuclear nucleic acid-binding protein C1D [Benincasa hispida])

HSP 1 Score: 160 bits (406), Expect = 1.49e-47
Identity = 84/88 (95.45%), Postives = 86/88 (97.73%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVK TLDNVEQVQTHLISFLSIAEP+VLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKMTLDNVEQVQTHLISFLSIAEPEVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          A+VTTTLFALKLRCSGV LDDHPIKSEL
Sbjct: 61 AKVTTTLFALKLRCSGVLLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. NCBI nr
Match: XP_022939979.1 (nuclear nucleic acid-binding protein C1D-like [Cucurbita moschata] >XP_022939980.1 nuclear nucleic acid-binding protein C1D-like [Cucurbita moschata])

HSP 1 Score: 156 bits (394), Expect = 9.84e-46
Identity = 81/88 (92.05%), Postives = 84/88 (95.45%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVR+ AVVPEKVMDSVK TLDNVEQVQTHLISFLSIAEPDVLAQM+PLQRAQSMLLL
Sbjct: 1  MEGGVRESAVVPEKVMDSVKMTLDNVEQVQTHLISFLSIAEPDVLAQMRPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          +R TTTLFALKLRCSGVH DDHPIKSEL
Sbjct: 61 SRATTTLFALKLRCSGVHPDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. NCBI nr
Match: KAG6608310.1 (Nuclear nucleic acid-binding protein C1D, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 154 bits (390), Expect = 3.24e-45
Identity = 80/89 (89.89%), Postives = 84/89 (94.38%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVR+ AVVPEKVMDSVK TLDNVEQVQTHLISFLSIA PDVLAQM+PLQRAQSMLLL
Sbjct: 1  MEGGVRESAVVPEKVMDSVKMTLDNVEQVQTHLISFLSIAGPDVLAQMRPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSELV 89
          +R TTTLFALKLRCSGVH DDHPIKSEL+
Sbjct: 61 SRATTTLFALKLRCSGVHPDDHPIKSELI 89

[Close]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match: A0A0A0L118 (Nuclear nucleic acid-binding protein C1D OS=Cucumis sativus OX=3659 GN=Csa_4G651890 PE=3 SV=1)

HSP 1 Score: 170 bits (430), Expect = 1.70e-51
Identity = 88/88 (100.00%), Postives = 88/88 (100.00%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALKLRCSGVHLDDHPIKSEL
Sbjct: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match: A0A5D3D8Y3 (Nuclear nucleic acid-binding protein C1D OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold134G001320 PE=3 SV=1)

HSP 1 Score: 165 bits (418), Expect = 1.12e-49
Identity = 85/88 (96.59%), Postives = 87/88 (98.86%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVKTTLDNVE VQTHLISFLSIAEP+VLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEHVQTHLISFLSIAEPEVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALKLRC+GVHLDDHPIKSEL
Sbjct: 61 ARVTTTLFALKLRCNGVHLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match: A0A1S3BUS6 (Nuclear nucleic acid-binding protein C1D OS=Cucumis melo OX=3656 GN=LOC103493742 PE=3 SV=1)

HSP 1 Score: 165 bits (418), Expect = 1.12e-49
Identity = 85/88 (96.59%), Postives = 87/88 (98.86%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRDFAVVPEKVMDSVKTTLDNVE VQTHLISFLSIAEP+VLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEHVQTHLISFLSIAEPEVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALKLRC+GVHLDDHPIKSEL
Sbjct: 61 ARVTTTLFALKLRCNGVHLDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match: A0A6J1FIR0 (Nuclear nucleic acid-binding protein C1D OS=Cucurbita moschata OX=3662 GN=LOC111445751 PE=3 SV=1)

HSP 1 Score: 156 bits (394), Expect = 4.76e-46
Identity = 81/88 (92.05%), Postives = 84/88 (95.45%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVR+ AVVPEKVMDSVK TLDNVEQVQTHLISFLSIAEPDVLAQM+PLQRAQSMLLL
Sbjct: 1  MEGGVRESAVVPEKVMDSVKMTLDNVEQVQTHLISFLSIAEPDVLAQMRPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          +R TTTLFALKLRCSGVH DDHPIKSEL
Sbjct: 61 SRATTTLFALKLRCSGVHPDDHPIKSEL 88

[Close]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match: A0A6J1IN17 (Nuclear nucleic acid-binding protein C1D OS=Cucurbita maxima OX=3661 GN=LOC111476708 PE=3 SV=1)

HSP 1 Score: 154 bits (390), Expect = 1.92e-45
Identity = 80/88 (90.91%), Postives = 84/88 (95.45%), Query Frame = 0 

Query: 1  MEGGVRDFAVVPEKVMDSVKTTLDNVEQVQTHLISFLSIAEPDVLAQMQPLQRAQSMLLL 60
          MEGGVRD AVVPEKVMDSVKTTL+NVEQVQTHLIS LSIAEP+VLAQMQPLQRAQSMLLL
Sbjct: 1  MEGGVRDSAVVPEKVMDSVKTTLENVEQVQTHLISLLSIAEPEVLAQMQPLQRAQSMLLL 60

Query: 61 ARVTTTLFALKLRCSGVHLDDHPIKSEL 88
          ARVTTTLFALK+RCSGVH DDHPI +EL
Sbjct: 61 ARVTTTLFALKVRCSGVHPDDHPINTEL 88

The following BLAST results are available for this feature:
BLAST of Cucsat.G11304 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
Q5XJ979.4e-0428.74Nuclear nucleic acid-binding protein C1D OS=Danio rerio OX=7955 GN=c1d PE=2 SV=1[more]
BLAST of Cucsat.G11304 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_004145496.13.51e-51100.00nuclear nucleic acid-binding protein C1D [Cucumis sativus] >KGN55423.1 hypotheti... [more]
XP_008452844.12.32e-4996.59PREDICTED: nuclear nucleic acid-binding protein C1D [Cucumis melo] >KAA0064576.1... [more]
XP_038897508.11.49e-4795.45nuclear nucleic acid-binding protein C1D [Benincasa hispida][more]
XP_022939979.19.84e-4692.05nuclear nucleic acid-binding protein C1D-like [Cucurbita moschata] >XP_022939980... [more]
KAG6608310.13.24e-4589.89Nuclear nucleic acid-binding protein C1D, partial [Cucurbita argyrosperma subsp.... [more]
BLAST of Cucsat.G11304 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
A0A0A0L1181.70e-51100.00Nuclear nucleic acid-binding protein C1D OS=Cucumis sativus OX=3659 GN=Csa_4G651... [more]
A0A5D3D8Y31.12e-4996.59Nuclear nucleic acid-binding protein C1D OS=Cucumis melo var. makuwa OX=1194695 ... [more]
A0A1S3BUS61.12e-4996.59Nuclear nucleic acid-binding protein C1D OS=Cucumis melo OX=3656 GN=LOC103493742... [more]
A0A6J1FIR04.76e-4692.05Nuclear nucleic acid-binding protein C1D OS=Cucurbita moschata OX=3662 GN=LOC111... [more]
A0A6J1IN171.92e-4590.91Nuclear nucleic acid-binding protein C1D OS=Cucurbita maxima OX=3661 GN=LOC11147... [more]
InterPro
Analysis Name: InterPro Annotations of Cucumber (B10) v3
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007146Sas10/Utp3/C1DPFAMPF04000Sas10_Utp3coord: 21..97
e-value: 4.6E-8
score: 33.5
IPR011082Exosome-associated factor Rrp47/DNA strand repair C1DPANTHERPTHR15341SUN-COR STEROID HORMONE RECEPTOR CO-REPRESSORcoord: 11..105
NoneNo IPR availablePANTHERPTHR15341:SF5EXOSOME-ASSOCIATED FACTOR RRP47/DNA STRAND REPAIR C1D-RELATEDcoord: 11..105

Relationships

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

Feature NameUnique NameType
Cucsat.G11304.T5Cucsat.G11304.T5mRNA
Cucsat.G11304.T4Cucsat.G11304.T4mRNA
Cucsat.G11304.T1Cucsat.G11304.T1mRNA
Cucsat.G11304.T3Cucsat.G11304.T3mRNA
Cucsat.G11304.T2Cucsat.G11304.T2mRNA
Cucsat.G11304.T8Cucsat.G11304.T8mRNA
Cucsat.G11304.T7Cucsat.G11304.T7mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0000460 maturation of 5.8S rRNA
biological_process GO:0010468 regulation of gene expression
cellular_component GO:0005737 cytoplasm
cellular_component GO:0000178 exosome (RNase complex)
cellular_component GO:0005730 nucleolus
molecular_function GO:0003677 DNA binding
molecular_function GO:0003723 RNA binding