Cp4.1LG08g08600 (gene) Cucurbita pepo (MU‐CU‐16) v4.1

Overview


Name	Cp4.1LG08g08600
Type	gene
Organism	Cucurbita pepo (Cucurbita pepo (MU‐CU‐16) v4.1)
Description	RNA polymerase II elongation factor
Location	Cp4.1LG08: 6716527 .. 6717038 (-)
RNA-Seq Expression	Cp4.1LG08g08600
Synteny	Cp4.1LG08g08600

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGGCCGAAGCCAAAGATTCGGGTGCCTACGTAGTCGAAATCCTAGACGAACAAGATAACCAAAATCGGAATCAAAACCTTATGATCTCTGTAATCCAAGAGCATCCATTGAGCCAAATTTCAGAAAGCTCAGGCCATCTATTGCTCTTAAAACTCTGGCAGCGAGACGAGCATTTGTTCGGCCTCCGAATCGGTCAACGAGAGACCAAATTGGAGTGTCTCAAGCAACAAATCTTCCAACTTTGCTGCTACTTCTTCCTCTTCAATGTCCTGTCTCTGACCCTGATGTTCACTTCCTATAATCCCAATGTGTGTCACAAATGGTGGGGTCCGGCGGTGTCGGTGGCGGCGACGTCGGTCGTGTTTGTGATGGCGGTGCAGGTGAAATTGTGGGGGTATTGGAAGGCAGCAGGGGAGTTGCAGAGGGAGAGGATGAAAGGGTGTTGTTTTAATTTGTGTAAAGAGCCTCAGAGTGTGGGGAAGAGGATGAAGAGCTCGAGTGTGGAGATTAA

mRNA sequence

ATGGCCGAAGCCAAAGATTCGGGTGCCTACGTAGTCGAAATCCTAGACGAACAAGATAACCAAAATCGGAATCAAAACCTTATGATCTCTGTAATCCAAGAGCATCCATTGAGCCAAATTTCAGAAAGCTCAGGCCATCTATTGCTCTTAAAACTCTGGCAGCGAGACGAGCATTTGTTCGGCCTCCGAATCGGTCAACGAGAGACCAAATTGGAGTGTCTCAAGCAACAAATCTTCCAACTTTGCTGCTACTTCTTCCTCTTCAATGTCCTGTCTCTGACCCTGATGTTCACTTCCTATAATCCCAATGTGTGTCACAAATGGTGGGGTCCGGCGGTGTCGGTGGCGGCGACGTCGGTCGTGTTTGTGATGGCGGTGCAGGTGAAATTGTGGGGAGCCTCAGAGTGTGGGGAAGAGGATGAAGAGCTCGAGTGTGGAGATTAA

Coding sequence (CDS)

ATGGCCGAAGCCAAAGATTCGGGTGCCTACGTAGTCGAAATCCTAGACGAACAAGATAACCAAAATCGGAATCAAAACCTTATGATCTCTGTAATCCAAGAGCATCCATTGAGCCAAATTTCAGAAAGCTCAGGCCATCTATTGCTCTTAAAACTCTGGCAGCGAGACGAGCATTTGTTCGGCCTCCGAATCGGTCAACGAGAGACCAAATTGGAGTGTCTCAAGCAACAAATCTTCCAACTTTGCTGCTACTTCTTCCTCTTCAATGTCCTGTCTCTGACCCTGATGTTCACTTCCTATAATCCCAATGTGTGTCACAAATGGTGGGGTCCGGCGGTGTCGGTGGCGGCGACGTCGGTCGTGTTTGTGATGGCGGTGCAGGTGAAATTGTGGGGAGCCTCAGAGTGTGGGGAAGAGGATGAAGAGCTCGAGTGTGGAGATTAA

Protein sequence

MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLFGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSVVFVMAVQVKLWGASECGEEDEELECGD

Homology

[Close]

BLAST of Cp4.1LG08g08600 vs. NCBI nr
Match: XP_023539504.1 (uncharacterized protein LOC111800147 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 268 bits (684), Expect = 4.79e-89
Identity = 132/132 (100.00%), Postives = 132/132 (100.00%), Query Frame = 0


Query: 1   MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 60
           MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF
Sbjct: 1   MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 60

Query: 61  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 120
           GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV
Sbjct: 61  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 120

Query: 121 VFVMAVQVKLWG 132
           VFVMAVQVKLWG
Sbjct: 121 VFVMAVQVKLWG 132

[Close]

BLAST of Cp4.1LG08g08600 vs. NCBI nr
Match: XP_038905570.1 (uncharacterized protein LOC120091553 [Benincasa hispida] >XP_038905571.1 uncharacterized protein LOC120091553 [Benincasa hispida])

HSP 1 Score: 205 bits (521), Expect = 4.59e-64
Identity = 100/131 (76.34%), Postives = 115/131 (87.79%), Query Frame = 0


Query: 1   MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 60
           MAE KDSGA++VEI  EQ+N  +NQN MISVIQ HPL QISESSGHLLLLKLWQRDEHLF
Sbjct: 1   MAETKDSGAHIVEIPVEQENHTQNQNPMISVIQHHPLRQISESSGHLLLLKLWQRDEHLF 60

Query: 61  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 120
           GLRIG+RETK+E LKQQIFQLCC+FFLF+ LSLTL++TS +PNVC KWW PAV++ ATS 
Sbjct: 61  GLRIGRRETKMESLKQQIFQLCCFFFLFHALSLTLLYTSSDPNVCKKWWVPAVAMGATSG 120

Query: 121 VFVMAVQVKLW 131
           VFV+ VQ+KLW
Sbjct: 121 VFVIVVQLKLW 131

[Close]

BLAST of Cp4.1LG08g08600 vs. NCBI nr
Match: KAG7028284.1 (hypothetical protein SDJN02_09465, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 196 bits (497), Expect = 1.43e-60
Identity = 102/131 (77.86%), Postives = 105/131 (80.15%), Query Frame = 0


Query: 1   MAEAKDSGAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 60
           MAEAKDSGA++VEILDEQDNQNR +NLMIS                        RDEHLF
Sbjct: 1   MAEAKDSGAHMVEILDEQDNQNRYRNLMIS------------------------RDEHLF 60

Query: 61  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 120
           GLRIG RETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV
Sbjct: 61  GLRIGHRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 107

Query: 121 VFVMAVQVKLW 131
           VFVMAVQVKLW
Sbjct: 121 VFVMAVQVKLW 107

[Close]

BLAST of Cp4.1LG08g08600 vs. NCBI nr
Match: KAG6577505.1 (hypothetical protein SDJN03_25079, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 191 bits (485), Expect = 7.86e-59
Identity = 98/131 (74.81%), Postives = 111/131 (84.73%), Query Frame = 0


Query: 3   EAKDSGA--YVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 62
           E KDSGA  +VVEI  E      NQN+MISVI++HPL QISESSGHLLLLKLWQR+EHLF
Sbjct: 4   ETKDSGAAAHVVEIPAE------NQNVMISVIEQHPLRQISESSGHLLLLKLWQREEHLF 63

Query: 63  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 122
           GLRIG+RETKLE LKQQIFQLCCYFFLF+ LSLTL+FTS +PNVCHKWW P V++ ATS 
Sbjct: 64  GLRIGRRETKLESLKQQIFQLCCYFFLFHALSLTLLFTSSDPNVCHKWWVPGVAMGATSG 123

Query: 123 VFVMAVQVKLW 131
           VFV+ VQ+KLW
Sbjct: 124 VFVIVVQLKLW 128

[Close]

BLAST of Cp4.1LG08g08600 vs. NCBI nr
Match: XP_022932317.1 (uncharacterized protein LOC111438709 [Cucurbita moschata])

HSP 1 Score: 191 bits (485), Expect = 1.22e-58
Identity = 98/131 (74.81%), Postives = 111/131 (84.73%), Query Frame = 0


Query: 3   EAKDSGA--YVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 62
           E KDSGA  +VVEI  E      NQN+MISVI++HPL QISESSGHLLLLKLWQR+EHLF
Sbjct: 4   ETKDSGAAAHVVEIPAE------NQNVMISVIEQHPLRQISESSGHLLLLKLWQREEHLF 63

Query: 63  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 122
           GLRIG+RETKLE LKQQIFQLCCYFFLF+ LSLTL+FTS +PNVCHKWW P V++ ATS 
Sbjct: 64  GLRIGRRETKLESLKQQIFQLCCYFFLFHALSLTLLFTSSDPNVCHKWWVPGVAMGATSG 123

Query: 123 VFVMAVQVKLW 131
           VFV+ VQ+KLW
Sbjct: 124 VFVIVVQLKLW 128

[Close]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL
Match: A0A6J1HN07 (uncharacterized protein LOC111465114 OS=Cucurbita maxima OX=3661 GN=LOC111465114 PE=4 SV=1)

HSP 1 Score: 191 bits (485), Expect = 5.90e-59
Identity = 97/131 (74.05%), Postives = 111/131 (84.73%), Query Frame = 0


Query: 3   EAKDSGA--YVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 62
           E KDSGA  ++VEI  E      NQN+MISVI++HPL QISESSGHLLLLKLWQR+EHLF
Sbjct: 4   ETKDSGAATHIVEIPAE------NQNIMISVIEQHPLRQISESSGHLLLLKLWQREEHLF 63

Query: 63  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 122
           GLRIG+RETKLE LKQQIFQLCCYFFLF+ LSLTL+FTS +PNVCHKWW P V++ ATS 
Sbjct: 64  GLRIGRRETKLESLKQQIFQLCCYFFLFHALSLTLLFTSSDPNVCHKWWVPGVAMGATSG 123

Query: 123 VFVMAVQVKLW 131
           VFV+ VQ+KLW
Sbjct: 124 VFVIVVQLKLW 128

[Close]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL
Match: A0A6J1EWB5 (uncharacterized protein LOC111438709 OS=Cucurbita moschata OX=3662 GN=LOC111438709 PE=4 SV=1)

HSP 1 Score: 191 bits (485), Expect = 5.90e-59
Identity = 98/131 (74.81%), Postives = 111/131 (84.73%), Query Frame = 0


Query: 3   EAKDSGA--YVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHLF 62
           E KDSGA  +VVEI  E      NQN+MISVI++HPL QISESSGHLLLLKLWQR+EHLF
Sbjct: 4   ETKDSGAAAHVVEIPAE------NQNVMISVIEQHPLRQISESSGHLLLLKLWQREEHLF 63

Query: 63  GLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATSV 122
           GLRIG+RETKLE LKQQIFQLCCYFFLF+ LSLTL+FTS +PNVCHKWW P V++ ATS 
Sbjct: 64  GLRIGRRETKLESLKQQIFQLCCYFFLFHALSLTLLFTSSDPNVCHKWWVPGVAMGATSG 123

Query: 123 VFVMAVQVKLW 131
           VFV+ VQ+KLW
Sbjct: 124 VFVIVVQLKLW 128

[Close]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL
Match: A0A0A0L2U7 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G061020 PE=4 SV=1)

HSP 1 Score: 189 bits (481), Expect = 2.54e-58
Identity = 98/132 (74.24%), Postives = 111/132 (84.09%), Query Frame = 0


Query: 1   MAEAKDS-GAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHL 60
           MAE KDS  A++VEI  EQ+N    QNLMISVIQ HPL QISESSGHLLLLKLWQRDEHL
Sbjct: 1   MAETKDSTAAHIVEIPVEQENHT--QNLMISVIQHHPLRQISESSGHLLLLKLWQRDEHL 60

Query: 61  FGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATS 120
           FGLRIG+RETK+E LKQQIFQLCC+FFLF+ LSLTL++TS +P VC KWW PAV + ATS
Sbjct: 61  FGLRIGRRETKMESLKQQIFQLCCFFFLFHALSLTLLYTSSDPIVCKKWWVPAVVIGATS 120

Query: 121 VVFVMAVQVKLW 131
            VFV+ VQ+KLW
Sbjct: 121 GVFVIVVQLKLW 130

[Close]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL
Match: A0A1S3BL81 (uncharacterized protein LOC103491049 OS=Cucumis melo OX=3656 GN=LOC103491049 PE=4 SV=1)

HSP 1 Score: 188 bits (478), Expect = 7.25e-58
Identity = 97/132 (73.48%), Postives = 111/132 (84.09%), Query Frame = 0


Query: 1   MAEAKDS-GAYVVEILDEQDNQNRNQNLMISVIQEHPLSQISESSGHLLLLKLWQRDEHL 60
           MA+ KDS  A++VEI  EQ+N    QNLMISVIQ HPL QISESSGHLLLLKLWQRDEHL
Sbjct: 1   MAQTKDSTAAHIVEIPVEQENHT--QNLMISVIQHHPLRQISESSGHLLLLKLWQRDEHL 60

Query: 61  FGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSYNPNVCHKWWGPAVSVAATS 120
           FGLRIG+RETK+E LKQQIFQLCC+FFLF+ LSLTL++TS +P VC KWW PAV + ATS
Sbjct: 61  FGLRIGRRETKMESLKQQIFQLCCFFFLFHALSLTLLYTSSDPIVCKKWWVPAVVIGATS 120

Query: 121 VVFVMAVQVKLW 131
            VFV+ VQ+KLW
Sbjct: 121 GVFVIVVQLKLW 130

[Close]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL
Match: A0A2P6QLA8 (Uncharacterized protein OS=Rosa chinensis OX=74649 GN=RchiOBHm_Chr5g0074881 PE=4 SV=1)

HSP 1 Score: 138 bits (347), Expect = 5.85e-38
Identity = 71/136 (52.21%), Postives = 98/136 (72.06%), Query Frame = 0


Query: 1   MAEAKDSGAYVVEI-LDEQDNQNRNQNL-MISVIQEHPLSQISESSGHLLLLKLWQRDEH 60
           MAE KD   +VVEI +DE+  Q  + ++ +IS IQ HPL +ISES GHLLLLKLW+R+E 
Sbjct: 1   MAEMKDCHHHVVEIPVDEEHQQKLSSSMTIISAIQHHPLMEISESPGHLLLLKLWRREED 60

Query: 61  LFGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTSY---NPNVCHKWWGPAVSV 120
           LFG RI +RET+++ ++++IFQLCC+F +F+   LT++FTS        C KWW P++  
Sbjct: 61  LFGRRIARRETRMDLIRREIFQLCCFFLIFHAFFLTILFTSSVNSEKGSCQKWWIPSILS 120

Query: 121 AATSVVFVMAVQVKLW 131
            +TSVVFV+ VQV LW
Sbjct: 121 VSTSVVFVVLVQVNLW 136

[Close]

BLAST of Cp4.1LG08g08600 vs. TAIR 10
Match: AT5G56120.1 (unknown protein; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT3G12870.1); Has 77 Blast hits to 75 proteins in 12 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 77; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink). )

HSP 1 Score: 115.5 bits (288), Expect = 3.5e-26
Identity = 68/151 (45.03%), Postives = 96/151 (63.58%), Query Frame = 0


Query: 1   MAEAKDSGAYVVEI-LDEQDNQNRNQNLMIS----------VIQEHPLSQISESSGHLLL 60
           MA  KDS  +VVEI +DE+  + + Q  +++          VIQ+HPLS+ISES GHLLL
Sbjct: 1   MAGTKDS--HVVEIPVDEEHKERQQQQQLVAVSNPGMGILKVIQQHPLSEISESPGHLLL 60

Query: 61  LKLWQRDEHLFGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLTLMFTS---------Y 120
           LKLWQR+E LF  R+  +E++LE +K++IFQLCC+F +F+    TL+++S          
Sbjct: 61  LKLWQREEDLFCRRVLLKESRLESIKREIFQLCCFFLVFHGFFFTLVYSSSCSDDADVVK 120

Query: 121 NPNVCHKWWGPAVSVAATSVVFVMAVQVKLW 132
           +  VC KWW P+    ATS+V V  VQ KL+
Sbjct: 121 SNAVCKKWWIPSAVSLATSLVLVFLVQAKLF 149

[Close]

BLAST of Cp4.1LG08g08600 vs. TAIR 10
Match: AT3G12870.1 (unknown protein; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT5G56120.1); Has 70 Blast hits to 70 proteins in 12 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 70; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink). )

HSP 1 Score: 67.8 bits (164), Expect = 8.4e-12
Identity = 34/102 (33.33%), Postives = 63/102 (61.76%), Query Frame = 0


Query: 35  HPLSQISESSGHLLLLKLWQRDEHLFGLRIGQRETKLECLKQQIFQLCCYFFLFNVLSLT 94
           HPL QI+++  H LLLK W ++E L   R+  +E++++ ++++I QL  +FFLF+ +SL 
Sbjct: 18  HPLHQIADTPTHKLLLKQWLKEEELILSRVSHKESQIDSVRREITQLYIFFFLFHSISLL 77

Query: 95  LMF-------TSYNPNVCHKWWGPAVSVAATSVVFVMAVQVK 130
           L+F       +S + + C + W P++    +S+  + AV+ K
Sbjct: 78  LLFHASSSSSSSASSSACKRSWIPSLCALLSSLGIIWAVRYK 119

The following BLAST results are available for this feature:

BLAST of Cp4.1LG08g08600 vs.


Match Name	E-value	Identity	Description

BLAST of Cp4.1LG08g08600 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_023539504.1	4.79e-89	100.00	uncharacterized protein LOC111800147 [Cucurbita pepo subsp. pepo]	[more]
XP_038905570.1	4.59e-64	76.34	uncharacterized protein LOC120091553 [Benincasa hispida] >XP_038905571.1 unchara...	[more]
KAG7028284.1	1.43e-60	77.86	hypothetical protein SDJN02_09465, partial [Cucurbita argyrosperma subsp. argyro...	[more]
KAG6577505.1	7.86e-59	74.81	hypothetical protein SDJN03_25079, partial [Cucurbita argyrosperma subsp. sorori...	[more]
XP_022932317.1	1.22e-58	74.81	uncharacterized protein LOC111438709 [Cucurbita moschata]	[more]

BLAST of Cp4.1LG08g08600 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1HN07	5.90e-59	74.05	uncharacterized protein LOC111465114 OS=Cucurbita maxima OX=3661 GN=LOC111465114...	[more]
A0A6J1EWB5	5.90e-59	74.81	uncharacterized protein LOC111438709 OS=Cucurbita moschata OX=3662 GN=LOC1114387...	[more]
A0A0A0L2U7	2.54e-58	74.24	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_3G061020 PE=4 SV=1	[more]
A0A1S3BL81	7.25e-58	73.48	uncharacterized protein LOC103491049 OS=Cucumis melo OX=3656 GN=LOC103491049 PE=...	[more]
A0A2P6QLA8	5.85e-38	52.21	Uncharacterized protein OS=Rosa chinensis OX=74649 GN=RchiOBHm_Chr5g0074881 PE=4...	[more]

BLAST of Cp4.1LG08g08600 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G56120.1	3.5e-26	45.03	unknown protein; BEST Arabidopsis thaliana protein match is: unknown protein (TA...	[more]
AT3G12870.1	8.4e-12	33.33	unknown protein; BEST Arabidopsis thaliana protein match is: unknown protein (TA...	[more]

InterPro

Analysis Name: InterPro Annotations of Cucurbita pepo (Zucchini) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR33287	OS03G0453550 PROTEIN	coord: 25..136
None	No IPR available	PANTHER	PTHR33287:SF3	OS03G0453550 PROTEIN	coord: 25..136

Relationships

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


Feature Name	Unique Name	Type
Cp4.1LG08g08600.1	Cp4.1LG08g08600.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
cellular_component	GO:0016021	integral component of membrane