CmaCh04G019400 (gene) Cucurbita maxima (Rimu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmaCh04G019400
Type	gene
Organism	Cucurbita maxima (Cucurbita maxima (Rimu))
Description	HIV Tat-specific factor 1 like
Location	Cma_Chr04 : 10579343 .. 10580399 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexonthree_prime_UTR

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

ATGTCTGTTAGTCGAGCTAAGTTTGAGCAAAAAGGTAGTGTTTTACTCCCTAGTGATTCATGCTTTAACATGTTTTACATTTTTTTTCTTCACATAACTAGAATTCTTTGGTTTTCAATGTTGTGACAACCATGTTCATCGTTATTAACCTTTTATTTCATTTGATGAACTTCCACAAGCAGGGGATACATTTGTAGCCAAAAAAGTAGACAACAAGAAGAAAAAGAAACTCAAAAAGGTTGAAGATAAGATACTTGGCTGGGGTATGTGTTTAGTACCTAGAATATTTTACTTTCTTCTGTTATTAAACATGCACAAAAAATTCTTCATTACCGCAATTCATATTCTTATTCTTCATTTTTTATTTTTTTTTATAATGCTTTTTTGTTCGTAGTATGTAAGAGCCATCATTGTTTCTTTTTGTGTACAAACTTTTGTGCTAGATATGTTGGATTCTAAGAAGCTTGATCTTAATCATAAATTTAAAATTCTGTTTATTTATTTATTTATTATATTTATGAATGCTTAGTAATAAATTTGTATATTAGTTCTAACACTTAAGTCTGTCATAATTATTACCATGTTTTGTAATAACACTTAAGTCTATAACCTTATGCTGCGTACGTGGCTCTAAAACATGTTCATGTTATTGAGTTAAAACCAGACTTGTTTTGGGGAATATTTTGTGAAGGTAGCTTAGTGTTAATGATTTGCACAGGTTTGGTGGAAGACAAATTCATGCAAGCGAGGACGATGGTTTAGTGAACCATGGTTTGGTGAGGGATCTTGAAGCCGATGCTGCTCGTTTGGAGCAGTTTGGCTCTGAACTCGAGGCTGACTAACTCTGTACTCCTCTACTACCCAAAGTTGTTCAGGTTTTATAATCAAGCCTTATGCCTGTATGAAACTCTTACCATTTTGTACGCTTTATTCAGATTAATATGGCCTTCCTAATGTTGCACCTAAAACATTTACGACTTTTAAGTCTTGTGGTTTCTATAATGAAGGACCTCATAAAGGAGATGCTCTAAGTTAATGTTGATTCCACTTTGAGATA

mRNA sequence

ATGTCTGTTAGTCGAGCTAAGTTTGAGCAAAAAGGGGATACATTTGTAGCCAAAAAAGTAGACAACAAGAAGAAAAAGAAACTCAAAAAGGTTGAAGATAAGATACTTGGCTGGGGTATGTGTTTAGTACCTAGAATATTTTACTTTCTTCTGTTTGGTGGAAGACAAATTCATGCAAGCGAGGACGATGGTTTAGTGAACCATGGTTTGGTGAGGGATCTTGAAGCCGATGCTGCTCGTTTGGAGCAGTTTGGCTCTGAACTCGAGGCTGACTAACTCTGTACTCCTCTACTACCCAAAGTTGTTCAGGTTTTATAATCAAGCCTTATGCCTGTATGAAACTCTTACCATTTTGTACGCTTTATTCAGATTAATATGGCCTTCCTAATGTTGCACCTAAAACATTTACGACTTTTAAGTCTTGTGGTTTCTATAATGAAGGACCTCATAAAGGAGATGCTCTAAGTTAATGTTGATTCCACTTTGAGATA

Coding sequence (CDS)

ATGTCTGTTAGTCGAGCTAAGTTTGAGCAAAAAGGGGATACATTTGTAGCCAAAAAAGTAGACAACAAGAAGAAAAAGAAACTCAAAAAGGTTGAAGATAAGATACTTGGCTGGGGTATGTGTTTAGTACCTAGAATATTTTACTTTCTTCTGTTTGGTGGAAGACAAATTCATGCAAGCGAGGACGATGGTTTAGTGAACCATGGTTTGGTGAGGGATCTTGAAGCCGATGCTGCTCGTTTGGAGCAGTTTGGCTCTGAACTCGAGGCTGACTAA

Protein sequence

MSVSRAKFEQKGDTFVAKKVDNKKKKKLKKVEDKILGWGMCLVPRIFYFLLFGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD

Homology

[Close]

BLAST of CmaCh04G019400 vs. TrEMBL
Match: A0A0A0L2D6_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G488690 PE=4 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 2.6e-12
Identity = 37/40 (92.50%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52 FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
          FGG+QIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 13 FGGKQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 52

[Close]

BLAST of CmaCh04G019400 vs. TrEMBL
Match: A0A0A0KZ32_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_4G491190 PE=4 SV=1)

HSP 1 Score: 79.3 bits (194), Expect = 2.6e-12
Identity = 37/40 (92.50%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGG+QIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 461 FGGKQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 500

[Close]

BLAST of CmaCh04G019400 vs. TrEMBL
Match: A0A067H1I9_CITSI (Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g009565mg PE=4 SV=1)

HSP 1 Score: 73.9 bits (180), Expect = 1.1e-10
Identity = 33/40 (82.50%), Postives = 38/40 (95.00%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGGRQIHASEDDGLVNH  +RDL+A+A+RLEQFG+ELEAD
Sbjct: 493 FGGRQIHASEDDGLVNHAAIRDLDAEASRLEQFGAELEAD 532

[Close]

BLAST of CmaCh04G019400 vs. TrEMBL
Match: A0A061F8M1_THECC (JHL23J11.4 protein isoform 1 OS=Theobroma cacao GN=TCM_031736 PE=4 SV=1)

HSP 1 Score: 73.6 bits (179), Expect = 1.4e-10
Identity = 34/40 (85.00%), Postives = 36/40 (90.00%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGGRQIHASEDDG+VNH LVRDL  DA RLEQFG+ELEAD
Sbjct: 431 FGGRQIHASEDDGVVNHALVRDLNEDAVRLEQFGAELEAD 470

[Close]

BLAST of CmaCh04G019400 vs. TrEMBL
Match: A0A0D2RJC2_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_003G087900 PE=4 SV=1)

HSP 1 Score: 73.2 bits (178), Expect = 1.9e-10
Identity = 33/40 (82.50%), Postives = 38/40 (95.00%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGGRQIHASEDDG+VNH LVRDL+ DA+RLEQFG+ELEA+
Sbjct: 448 FGGRQIHASEDDGVVNHALVRDLDEDASRLEQFGAELEAE 487

[Close]

BLAST of CmaCh04G019400 vs. TAIR10
Match: AT5G16260.1 (AT5G16260.1 RNA binding (RRM/RBD/RNP motifs) family protein)

HSP 1 Score: 68.6 bits (166), Expect = 2.3e-12
Identity = 40/83 (48.19%), Postives = 51/83 (61.45%), Query Frame = 1


Query: 1   MSVSRAKFEQKGDTFVAKKVDNKKKKKLKKVEDKILGWG------MCLVPRIFYFLLFGG 60
           MSVSRAKFEQKG+ F+ K+ DNKKKKKLKKVE K+LGWG      + +   +    +F  
Sbjct: 357 MSVSRAKFEQKGERFITKQTDNKKKKKLKKVEQKLLGWGGTDDSKVSIPATVVLRYMFSP 416

Query: 61  RQIHASEDDGLVNHGLVRDLEAD 78
            ++ A ED       LV +LE D
Sbjct: 417 AELMADED-------LVAELEED 432

[Close]

BLAST of CmaCh04G019400 vs. NCBI nr
Match: gi|659083061|ref|XP_008442164.1| (PREDICTED: splicing factor U2AF-associated protein 2 isoform X2 [Cucumis melo])

HSP 1 Score: 80.5 bits (197), Expect = 1.7e-12
Identity = 38/40 (95.00%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGGRQIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 341 FGGRQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 380

[Close]

BLAST of CmaCh04G019400 vs. NCBI nr
Match: gi|659083059|ref|XP_008442163.1| (PREDICTED: splicing factor U2AF-associated protein 2 isoform X1 [Cucumis melo])

HSP 1 Score: 80.5 bits (197), Expect = 1.7e-12
Identity = 38/40 (95.00%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGGRQIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 459 FGGRQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 498

[Close]

BLAST of CmaCh04G019400 vs. NCBI nr
Match: gi|778694873|ref|XP_011653887.1| (PREDICTED: splicing factor U2AF-associated protein 2 [Cucumis sativus])

HSP 1 Score: 79.3 bits (194), Expect = 3.8e-12
Identity = 37/40 (92.50%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGG+QIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 459 FGGKQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 498

[Close]

BLAST of CmaCh04G019400 vs. NCBI nr
Match: gi|700199614|gb|KGN54772.1| (hypothetical protein Csa_4G488690 [Cucumis sativus])

HSP 1 Score: 79.3 bits (194), Expect = 3.8e-12
Identity = 37/40 (92.50%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52 FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
          FGG+QIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 13 FGGKQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 52

[Close]

BLAST of CmaCh04G019400 vs. NCBI nr
Match: gi|700199615|gb|KGN54773.1| (hypothetical protein Csa_4G491190 [Cucumis sativus])

HSP 1 Score: 79.3 bits (194), Expect = 3.8e-12
Identity = 37/40 (92.50%), Postives = 39/40 (97.50%), Query Frame = 1


Query: 52  FGGRQIHASEDDGLVNHGLVRDLEADAARLEQFGSELEAD 92
           FGG+QIHASEDDGLVNH +VRDLEADAARLEQFGSELEAD
Sbjct: 461 FGGKQIHASEDDGLVNHAMVRDLEADAARLEQFGSELEAD 500

The following BLAST results are available for this feature:

BLAST of CmaCh04G019400 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmaCh04G019400 vs. TrEMBL


Match Name	E-value	Identity	Description
A0A0A0L2D6_CUCSA	2.6e-12	92.50	Uncharacterized protein OS=Cucumis sativus GN=Csa_4G488690 PE=4 SV=1	[more]
A0A0A0KZ32_CUCSA	2.6e-12	92.50	Uncharacterized protein OS=Cucumis sativus GN=Csa_4G491190 PE=4 SV=1	[more]
A0A067H1I9_CITSI	1.1e-10	82.50	Uncharacterized protein OS=Citrus sinensis GN=CISIN_1g009565mg PE=4 SV=1	[more]
A0A061F8M1_THECC	1.4e-10	85.00	JHL23J11.4 protein isoform 1 OS=Theobroma cacao GN=TCM_031736 PE=4 SV=1	[more]
A0A0D2RJC2_GOSRA	1.9e-10	82.50	Uncharacterized protein OS=Gossypium raimondii GN=B456_003G087900 PE=4 SV=1	[more]

BLAST of CmaCh04G019400 vs. TAIR10


Match Name	E-value	Identity	Description
AT5G16260.1	2.3e-12	48.19	RNA binding (RRM/RBD/RNP motifs) family protein	[more]

BLAST of CmaCh04G019400 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659083061\|ref\|XP_008442164.1\|	1.7e-12	95.00	PREDICTED: splicing factor U2AF-associated protein 2 isoform X2 [Cucumis melo]	[more]
gi\|659083059\|ref\|XP_008442163.1\|	1.7e-12	95.00	PREDICTED: splicing factor U2AF-associated protein 2 isoform X1 [Cucumis melo]	[more]
gi\|778694873\|ref\|XP_011653887.1\|	3.8e-12	92.50	PREDICTED: splicing factor U2AF-associated protein 2 [Cucumis sativus]	[more]
gi\|700199614\|gb\|KGN54772.1\|	3.8e-12	92.50	hypothetical protein Csa_4G488690 [Cucumis sativus]	[more]
gi\|700199615\|gb\|KGN54773.1\|	3.8e-12	92.50	hypothetical protein Csa_4G491190 [Cucumis sativus]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0009910	negative regulation of flower development
biological_process	GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
cellular_component	GO:0005829	cytosol
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003729	mRNA binding
molecular_function	GO:0000166	nucleotide binding

Relationships

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


Feature Name	Unique Name	Type
CmaCh04G019400.1	CmaCh04G019400.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita maxima
Date Performed: 2017-05-20


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	unknown	Coil	Coil	coord: 71..91 scor

Synteny

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


Gene	Orthologue	Organism	Block
CmaCh04G019400	CmoCh04G020560	Cucurbita moschata (Rifu)	cmacmoB728

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmaCh04G019400	Watermelon (97103) v2	cmawmbB726
CmaCh04G019400	Watermelon (Charleston Gray)	cmawcgB622
CmaCh04G019400	Watermelon (97103) v1	cmawmB739
CmaCh04G019400	Cucurbita pepo (Zucchini)	cmacpeB720
CmaCh04G019400	Bottle gourd (USVL1VR-Ls)	cmalsiB635
CmaCh04G019400	Cucumber (Gy14) v2	cgybcmaB670
CmaCh04G019400	Melon (DHL92) v3.6.1	cmamedB737
CmaCh04G019400	Silver-seed gourd	carcmaB1020