CmoCh09G013410 (gene) Cucurbita moschata (Rifu) | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CmoCh09G013410
Type	gene
Organism	Cucurbita moschata (Cucurbita moschata (Rifu))
Description	Reverse transcriptase
Location	Cmo_Chr09 : 12162964 .. 12163451 (-)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSexon

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

ATGGTGAAAGGCCTGCCGCAAATTGGAGCTCCAAACACCACCTGTGAGGCATGTATGAAAGGCAAGCAACATCGGACTCCATTTCCAAAAATGGGTAAATGGAGACCAACGAAAAAATTGGATTAGGGGAAAACATTGAAATTGATAAGAACACATCCGAAGGAGGAGGAATCACAGAGGAAACGACTGAACCAGTTGATGAAACAATTGAACTAGTTGCTGAAAACGAAGAAGGGAAAATCACGGAAGAAACGACTAAATTGGTTGCTGAAACAATTGAATCAGTTGCTGAAAACAATTTTCCAGTAATTGTTGCACTAGATTTGACAATAAGGGAGGGGAGAAATCGACATCCACCTGTATGGTTAGCAGATTCCGGTGAAAACTATGAGAAAAAGGGAAGTGAGGAGATGGTGTACAAACTCCAAAAGACTCTCTACGGATTAAAACAAGCACCTAGAACCTGGTTTAGTCGAATAGAATCCTAG

mRNA sequence

ATGGTGAAAGGCCTGCCGCAAATTGGAGCTCCAAACACCACCTGGGAAAACATTGAAATTGATAAGAACACATCCGAAGGAGGAGGAATCACAGAGGAAACGACTGAACCAGTTGATGAAACAATTGAACTAGTTGCTGAAAACGAAGAAGGGAAAATCACGGAAGAAACGACTAAATTGGTTGCTGAAACAATTGAATCAGTTGCTGAAAACAATTTTCCAGTAATTGTTGCACTAGATTTGACAATAAGGGAGGGGAGAAATCGACATCCACCTGTATGGTTAGCAGATTCCGGTGAAAACTATGAGAAAAAGGGAAGTGAGGAGATGGTGTACAAACTCCAAAAGACTCTCTACGGATTAAAACAAGCACCTAGAACCTGGTTTAGTCGAATAGAATCCTAG

Coding sequence (CDS)

ATGGTGAAAGGCCTGCCGCAAATTGGAGCTCCAAACACCACCTGGGAAAACATTGAAATTGATAAGAACACATCCGAAGGAGGAGGAATCACAGAGGAAACGACTGAACCAGTTGATGAAACAATTGAACTAGTTGCTGAAAACGAAGAAGGGAAAATCACGGAAGAAACGACTAAATTGGTTGCTGAAACAATTGAATCAGTTGCTGAAAACAATTTTCCAGTAATTGTTGCACTAGATTTGACAATAAGGGAGGGGAGAAATCGACATCCACCTGTATGGTTAGCAGATTCCGGTGAAAACTATGAGAAAAAGGGAAGTGAGGAGATGGTGTACAAACTCCAAAAGACTCTCTACGGATTAAAACAAGCACCTAGAACCTGGTTTAGTCGAATAGAATCCTAG

Homology

[Close]

BLAST of CmoCh09G013410 vs. TrEMBL
Match: A5BQM4_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_036712 PE=4 SV=1)

HSP 1 Score: 62.0 bits (149), Expect = 6.4e-07
Identity = 28/38 (73.68%), Postives = 30/38 (78.95%), Query Frame = 1


Query: 97  DSGENYEKKGSEEMVYKLQKTLYGLKQAPRTWFSRIES 135
           D  + YEKKGSE  VYKL K LYGLKQAPR WFSRIE+
Sbjct: 876 DQPKGYEKKGSEHKVYKLHKALYGLKQAPRAWFSRIEA 913

[Close]

BLAST of CmoCh09G013410 vs. TrEMBL
Match: A5BY31_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_001420 PE=4 SV=1)

HSP 1 Score: 60.8 bits (146), Expect = 1.4e-06
Identity = 27/38 (71.05%), Postives = 30/38 (78.95%), Query Frame = 1


Query: 97  DSGENYEKKGSEEMVYKLQKTLYGLKQAPRTWFSRIES 135
           D  + YEKKG+E  VYKL K LYGLKQAPR WFSRIE+
Sbjct: 777 DQPKGYEKKGNEHKVYKLHKALYGLKQAPRAWFSRIEA 814

[Close]

BLAST of CmoCh09G013410 vs. TrEMBL
Match: A5BCB9_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_011792 PE=4 SV=1)

HSP 1 Score: 58.5 bits (140), Expect = 7.0e-06
Identity = 25/35 (71.43%), Postives = 29/35 (82.86%), Query Frame = 1


Query: 100 ENYEKKGSEEMVYKLQKTLYGLKQAPRTWFSRIES 135
           + YEKKG E  VYKL+K LYGLKQAPR W+SRIE+
Sbjct: 727 QGYEKKGEEHKVYKLKKALYGLKQAPRAWYSRIEA 761

[Close]

BLAST of CmoCh09G013410 vs. NCBI nr
Match: gi|147821826|emb|CAN72600.1| (hypothetical protein VITISV_036712 [Vitis vinifera])

HSP 1 Score: 62.0 bits (149), Expect = 9.1e-07
Identity = 28/38 (73.68%), Postives = 30/38 (78.95%), Query Frame = 1


Query: 97  DSGENYEKKGSEEMVYKLQKTLYGLKQAPRTWFSRIES 135
           D  + YEKKGSE  VYKL K LYGLKQAPR WFSRIE+
Sbjct: 876 DQPKGYEKKGSEHKVYKLHKALYGLKQAPRAWFSRIEA 913

[Close]

BLAST of CmoCh09G013410 vs. NCBI nr
Match: gi|147782385|emb|CAN75114.1| (hypothetical protein VITISV_001420 [Vitis vinifera])

HSP 1 Score: 60.8 bits (146), Expect = 2.0e-06
Identity = 27/38 (71.05%), Postives = 30/38 (78.95%), Query Frame = 1


Query: 97  DSGENYEKKGSEEMVYKLQKTLYGLKQAPRTWFSRIES 135
           D  + YEKKG+E  VYKL K LYGLKQAPR WFSRIE+
Sbjct: 777 DQPKGYEKKGNEHKVYKLHKALYGLKQAPRAWFSRIEA 814

The following BLAST results are available for this feature:

BLAST of CmoCh09G013410 vs. Swiss-Prot


Match Name	E-value	Identity	Description

BLAST of CmoCh09G013410 vs. TrEMBL


Match Name	E-value	Identity	Description
A5BQM4_VITVI	6.4e-07	73.68	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_036712 PE=4 SV=1	[more]
A5BY31_VITVI	1.4e-06	71.05	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_001420 PE=4 SV=1	[more]
A5BCB9_VITVI	7.0e-06	71.43	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_011792 PE=4 SV=1	[more]

BLAST of CmoCh09G013410 vs. TAIR10


Match Name	E-value	Identity	Description

BLAST of CmoCh09G013410 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|147821826\|emb\|CAN72600.1\|	9.1e-07	73.68	hypothetical protein VITISV_036712 [Vitis vinifera]	[more]
gi\|147782385\|emb\|CAN75114.1\|	2.0e-06	71.05	hypothetical protein VITISV_001420 [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR013103	RVT_2

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006278	RNA-dependent DNA biosynthetic process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:0003676	nucleic acid binding
molecular_function	GO:0003964	RNA-directed DNA polymerase activity
molecular_function	GO:0008270	zinc ion binding

Relationships

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


Feature Name	Unique Name	Type
CmoCh09G013410.1	CmoCh09G013410.1	mRNA

InterPro

Analysis Name: InterPro Annotations of Cucurbita moschata
Date Performed: 2017-05-19


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR013103	Reverse transcriptase, RNA-dependent DNA polymerase	PFAM	PF07727	RVT_2	coord: 100..133 score: 4.

Synteny

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

None

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

None

The following block(s) are covering this gene:


Gene	Organism	Block
CmoCh09G013410	Cucumber (Chinese Long) v3	cmocucB0024
CmoCh09G013410	Watermelon (97103) v2	cmowmbB028
CmoCh09G013410	Wax gourd	cmowgoB0004
CmoCh09G013410	Cucumber (Gy14) v1	cgycmoB0082
CmoCh09G013410	Cucurbita maxima (Rimu)	cmacmoB029
CmoCh09G013410	Wild cucumber (PI 183967)	cmocpiB020
CmoCh09G013410	Cucumber (Chinese Long) v2	cmocuB020
CmoCh09G013410	Melon (DHL92) v3.5.1	cmomeB000
CmoCh09G013410	Watermelon (Charleston Gray)	cmowcgB027
CmoCh09G013410	Watermelon (97103) v1	cmowmB015
CmoCh09G013410	Cucurbita pepo (Zucchini)	cmocpeB035
CmoCh09G013410	Bottle gourd (USVL1VR-Ls)	cmolsiB025
CmoCh09G013410	Cucumber (Gy14) v2	cgybcmoB551
CmoCh09G013410	Melon (DHL92) v3.6.1	cmomedB000