CsaV3_6G003640 (gene) Cucumber (Chinese Long) v3

Overview
NameCsaV3_6G003640
Typegene
OrganismCucumis sativus L. var. sativus cv. Chinese Long (Cucumber (Chinese Long) v3)
DescriptionRetrotrans_gag domain-containing protein
Locationchr6: 2968459 .. 2968686 (+)
RNA-Seq ExpressionCsaV3_6G003640
SyntenyCsaV3_6G003640
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.
ATGCCTGACATATCGTTAGACAAACTGCATTTAGCACTATTTCCGCTCATATTACACAATGAAACTAAACAATGGGCCAATGCTTTGGAAGAAGAAGAAGCAACAACATCGGACAACTTGATTGAAAAATTTATGAAGAAATTCTTTCCACCCATTGAGAATGCGATAAGAAGACAAGACCTGATGACCTTCGAACAGAGCAATAGCGAGAACTTGATAGACGCGTAG

mRNA sequence

ATGCCTGACATATCGTTAGACAAACTGCATTTAGCACTATTTCCGCTCATATTACACAATGAAACTAAACAATGGGCCAATGCTTTGGAAGAAGAAGAAGCAACAACATCGGACAACTTGATTGAAAAATTTATGAAGAAATTCTTTCCACCCATTGAGAATGCGATAAGAAGACAAGACCTGATGACCTTCGAACAGAGCAATAGCGAGAACTTGATAGACGCGTAG

Coding sequence (CDS)

ATGCCTGACATATCGTTAGACAAACTGCATTTAGCACTATTTCCGCTCATATTACACAATGAAACTAAACAATGGGCCAATGCTTTGGAAGAAGAAGAAGCAACAACATCGGACAACTTGATTGAAAAATTTATGAAGAAATTCTTTCCACCCATTGAGAATGCGATAAGAAGACAAGACCTGATGACCTTCGAACAGAGCAATAGCGAGAACTTGATAGACGCGTAG

Protein sequence

MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQDLMTFEQSNSENLIDA*
Homology
BLAST of CsaV3_6G003640 vs. NCBI nr
Match: KGN45973.1 (hypothetical protein Csa_005655 [Cucumis sativus])

HSP 1 Score: 153.3 bits (386), Expect = 8.4e-34
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0

Query: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
          MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD
Sbjct: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60

Query: 61 LMTFEQSNSENLIDA 76
          LMTFEQSNSENLIDA
Sbjct: 61 LMTFEQSNSENLIDA 75

BLAST of CsaV3_6G003640 vs. NCBI nr
Match: XP_038880527.1 (uncharacterized protein LOC120072192 [Benincasa hispida])

HSP 1 Score: 80.1 bits (196), Expect = 9.1e-12
Identity = 36/72 (50.00%), Postives = 53/72 (73.61%), Query Frame = 0

Query: 1   MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
           +P I+ +K+ L+LFP  L ++ KQW ++LE EE TT + L+EKFM+K+FPP  NA RR++
Sbjct: 74  IPRITPEKIRLSLFPNSLRDDAKQWVSSLEPEEITTWEKLVEKFMQKYFPPTTNARRRRE 133

Query: 61  LMTFEQSNSENL 73
           +M FEQ + E L
Sbjct: 134 IMNFEQEDIETL 145

BLAST of CsaV3_6G003640 vs. NCBI nr
Match: WP_217833228.1 (retrotransposon gag domain-containing protein, partial [Synechococcus sp. PCC 7002])

HSP 1 Score: 79.0 bits (193), Expect = 2.0e-11
Identity = 37/75 (49.33%), Postives = 52/75 (69.33%), Query Frame = 0

Query: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
          +P+IS D + L LFP  L +E +QWA +LE  E TT + +IEKFMKK+FP  ENA RR+D
Sbjct: 19 IPNISADDIRLTLFPFSLRDEARQWAYSLEPGEITTWNQMIEKFMKKYFPLTENARRRRD 78

Query: 61 LMTFEQSNSENLIDA 76
          +  F+Q + E + +A
Sbjct: 79 IANFQQKDRETVSNA 93

BLAST of CsaV3_6G003640 vs. NCBI nr
Match: WP_217833177.1 (retrotransposon gag domain-containing protein, partial [Synechococcus sp. PCC 7002])

HSP 1 Score: 75.1 bits (183), Expect = 2.9e-10
Identity = 34/75 (45.33%), Postives = 49/75 (65.33%), Query Frame = 0

Query: 1   MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
           M  +  D + L LFP  L +E +QWA + E  E TT   ++EKFM+K+FPP  +A RR+D
Sbjct: 147 MAGVPQDSIRLTLFPFSLRDEARQWAYSFEPGEITTWGKMVEKFMQKYFPPTVSAKRRRD 206

Query: 61  LMTFEQSNSENLIDA 76
           ++TFEQ +SE   +A
Sbjct: 207 IVTFEQKDSETFSEA 221

BLAST of CsaV3_6G003640 vs. NCBI nr
Match: XP_038904327.1 (uncharacterized protein LOC120090680 [Benincasa hispida])

HSP 1 Score: 73.6 bits (179), Expect = 8.5e-10
Identity = 33/72 (45.83%), Postives = 50/72 (69.44%), Query Frame = 0

Query: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
          +P I+ + + L+LFP  L ++ KQW ++LE  E TT + L+EKFM+K+FP   NA RR++
Sbjct: 13 IPGITPEAIRLSLFPYSLRDDAKQWVSSLEPGEITTWEKLVEKFMQKYFPHTTNARRRRE 72

Query: 61 LMTFEQSNSENL 73
          +M FEQ  +E L
Sbjct: 73 IMNFEQEEAETL 84

BLAST of CsaV3_6G003640 vs. ExPASy TrEMBL
Match: A0A0A0K974 (Retrotrans_gag domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_6G040620 PE=4 SV=1)

HSP 1 Score: 153.3 bits (386), Expect = 4.1e-34
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 0

Query: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
          MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD
Sbjct: 1  MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60

Query: 61 LMTFEQSNSENLIDA 76
          LMTFEQSNSENLIDA
Sbjct: 61 LMTFEQSNSENLIDA 75

BLAST of CsaV3_6G003640 vs. ExPASy TrEMBL
Match: A0A5D3E4P5 (Retrovirus-related Pol polyprotein from transposon 17.6 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold1985G00070 PE=4 SV=1)

HSP 1 Score: 68.9 bits (167), Expect = 1.0e-08
Identity = 32/56 (57.14%), Postives = 44/56 (78.57%), Query Frame = 0

Query: 20  NETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQDLMTFEQSNSENLIDA 76
           ++ K+WAN++E  E TT ++LIEKFMKKFFP I+ A RRQDL+ F+Q + +NL DA
Sbjct: 56  DDAKRWANSMEHGEVTTWEDLIEKFMKKFFPTIKIAKRRQDLILFKQKDRKNLHDA 111

BLAST of CsaV3_6G003640 vs. ExPASy TrEMBL
Match: A0A5A7V1F3 (Retrotrans_gag domain-containing protein OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold89G002850 PE=4 SV=1)

HSP 1 Score: 68.6 bits (166), Expect = 1.3e-08
Identity = 32/56 (57.14%), Postives = 44/56 (78.57%), Query Frame = 0

Query: 20  NETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQDLMTFEQSNSENLIDA 76
           ++ K+WAN++E  E TT ++LIEKFMKKFFP I+ A RRQDL+ F+Q + +NL DA
Sbjct: 56  DDAKRWANSMEHGEVTTWEDLIEKFMKKFFPTIKIAKRRQDLILFKQRDRKNLHDA 111

BLAST of CsaV3_6G003640 vs. ExPASy TrEMBL
Match: A0A392NID4 (Retrotrans_gag domain-containing protein (Fragment) OS=Trifolium medium OX=97028 GN=A2U01_0020009 PE=4 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 1.7e-08
Identity = 31/75 (41.33%), Postives = 44/75 (58.67%), Query Frame = 0

Query: 1   MPDISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQD 60
           +P I++D   L LFP  L +  K W N+LE       + L EKF+ K+FPP++NA  R D
Sbjct: 138 IPGITIDAFRLRLFPYSLRDRPKSWLNSLEPNAIANWNALAEKFLAKYFPPVKNAKMRND 197

Query: 61  LMTFEQSNSENLIDA 76
           + +F Q + E L DA
Sbjct: 198 ITSFRQGDDEALFDA 212

BLAST of CsaV3_6G003640 vs. ExPASy TrEMBL
Match: A0A5B6UZH7 (Retrotransposon gag protein OS=Gossypium australe OX=47621 GN=EPI10_027113 PE=4 SV=1)

HSP 1 Score: 65.1 bits (157), Expect = 1.5e-07
Identity = 31/72 (43.06%), Postives = 43/72 (59.72%), Query Frame = 0

Query: 4   ISLDKLHLALFPLILHNETKQWANALEEEEATTSDNLIEKFMKKFFPPIENAIRRQDLMT 63
           +S D +HL LFP  L N+ KQW N+L     TT + + EKF+ K+ PP + A  R D+ +
Sbjct: 133 VSDDAVHLRLFPFSLRNKAKQWLNSLPRGSITTWEQMTEKFLLKYCPPAKTAKLRNDISS 192

Query: 64  FEQSNSENLIDA 76
           F Q + E L DA
Sbjct: 193 FVQMDLETLYDA 204

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
KGN45973.18.4e-34100.00hypothetical protein Csa_005655 [Cucumis sativus][more]
XP_038880527.19.1e-1250.00uncharacterized protein LOC120072192 [Benincasa hispida][more]
WP_217833228.12.0e-1149.33retrotransposon gag domain-containing protein, partial [Synechococcus sp. PCC 70... [more]
WP_217833177.12.9e-1045.33retrotransposon gag domain-containing protein, partial [Synechococcus sp. PCC 70... [more]
XP_038904327.18.5e-1045.83uncharacterized protein LOC120090680 [Benincasa hispida][more]
Match NameE-valueIdentityDescription
Match NameE-valueIdentityDescription
A0A0A0K9744.1e-34100.00Retrotrans_gag domain-containing protein OS=Cucumis sativus OX=3659 GN=Csa_6G040... [more]
A0A5D3E4P51.0e-0857.14Retrovirus-related Pol polyprotein from transposon 17.6 OS=Cucumis melo var. mak... [more]
A0A5A7V1F31.3e-0857.14Retrotrans_gag domain-containing protein OS=Cucumis melo var. makuwa OX=1194695 ... [more]
A0A392NID41.7e-0841.33Retrotrans_gag domain-containing protein (Fragment) OS=Trifolium medium OX=97028... [more]
A0A5B6UZH71.5e-0743.06Retrotransposon gag protein OS=Gossypium australe OX=47621 GN=EPI10_027113 PE=4 ... [more]
Match NameE-valueIdentityDescription
InterPro
Analysis Name: InterPro Annotations of Cucumber (Chinese Long) v3
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR005162Retrotransposon gag domainPFAMPF03732Retrotrans_gagcoord: 13..70
e-value: 3.0E-5
score: 24.2

Relationships

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

Feature NameUnique NameType
CsaV3_6G003640.1CsaV3_6G003640.1mRNA