Cucsa.163240 (gene) Cucumber (Gy14) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cucsa.163240
Type	gene
Organism	Cucumis sativus (Cucumber (Gy14) v1)
Description	LINE-1 reverse transcriptase isogeny
Location	scaffold01144 : 2650302 .. 2651005 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

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

ATGACTTGCATCATTGCTCTTTCGCAAAGCACATTTATAGAAGGTAGGCAAATTTTAGATCCCATCCTTGTTGCTAATGAAGCTGTTGAGGATTATCAGACCAAAAAGAATAAAGGCTGGATCCTTAAACTTGATATGGAAAAGGCCTTCAACTGGGTCAAATGGGACTTCCTTGAGAAAATCTTGAAAATTAAAATGTTTGATCACAAGTGGATTGAGTGGATGATGGGCTGCCTTAAAACCCAAGATACTCAATTTTTAACCGGGTTGAATGGGACTCCATGAAAATCTTCAGCATTTTCCACTGTATCTGTCAGTCGAGAAGCTGAGTTGTGTTGAAAACAAGCTCCAAAAAGGTTCCCGAAGAAGAGTTGGAGATGATGTCAGAGGGTGGAAATGGAGCAAAGGTATGCCAGATAATTTGCCGAAGAAGACAGGTTGAAGAGAAAGGACGGAACGGAAGAGAGAGAAAGGAGAGAGAGAGAACTTACTTCAGTCCTAAGGACCTATATGTCACATAGAAGCTTTTCTCCAAGGACAATACTTGTGGGATCTTGTTTTCGGTGATGATTCAATTTAAAACAATACTCCAGAGAATGTTGAGGCACGAAACTCAAATGCCTAGATCCTTATGAAGTTGCTCACAGAAATGCTTCATCATGGTGCATCCTCTCTAAAGATTTTGACATCTACAGCATCTCAGA

mRNA sequence

atgacttgcatcattgctctttcgcaaagcacatttatagaaggtaggcaaattttagatcccatccttgttgctaatgaagctgttgaggattatcagaccaaaaagaataaaggctggatccttaaacttgatatggaaaaggccttcaactgggtcaaatgggacttccttgagaaaatcttgaaaattaaaatgtttgatcacaagtggattgagtggatgatgggctgccttaaaacccaagatactcaatttttaACCGGTTGTGTTGAAAACAAGCTCCAAAAAGGTTCCCGAAGAAGAGTTGGAGATGATGTCAGAGGGTGGAAATGGAGCAAAGaaatgcttcatcatggtgcatcctctctaaagattttgacatctacagcatctcaga

Coding sequence (CDS)

ATGACTTGCATCATTGCTCTTTCGCAAAGCACATTTATAGAAGGTAGGCAAATTTTAGATCCCATCCTTGTTGCTAATGAAGCTGTTGAGGATTATCAGACCAAAAAGAATAAAGGCTGGATCCTTAAACTTGATATGGAAAAGGCCTTCAACTGGGTCAAATGGGACTTCCTTGAGAAAATCTTGAAAATTAAAATGTTTGATCACAAGTGGATTGAGTGGATGATGGGCTGCCTTAAAACCCAAGATACTCAATTTTTAACCGGTTGTGTTGAAAACAAGCTCCAAAAAGGTTCCCGAAGAAGAGTTGGAGATGATGTCAGAGGGTGGAAATGGAGCAAAGAAATGCTTCATCATGGTGCATCCTCTCTAAAGATTTTGACATCTACAGCATCTCAGA

Protein sequence

MTCIIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILKIKMFDHKWIEWMMGCLKTQDTQFLTGCVENKLQKGSRRRVGDDVRGWKWSKEMLHHGASSLKILTSTASQX

Homology

[Close]

BLAST of Cucsa.163240 vs. TrEMBL
Match: A5BAV2_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020427 PE=4 SV=1)

HSP 1 Score: 89.4 bits (220), Expect = 3.7e-15
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 1


Query: 4   IIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILK 63
           +++L Q+ F++GRQILD  L+ANE ++ +Q +K KG I KLD+EKA++ + WDFL KIL+
Sbjct: 727 VVSLDQNAFVKGRQILDASLIANEVIDTWQKRKEKGLICKLDIEKAYDSISWDFLMKILR 786

Query: 64  IKMFDHKWIEWMMGCLKTQDTQFLTGCV 92
              F  +W+EW+  C+ T     L   V
Sbjct: 787 KLGFGSRWMEWIWWCISTAKXSVLVNGV 814

[Close]

BLAST of Cucsa.163240 vs. TrEMBL
Match: A5C9R5_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_040345 PE=4 SV=1)

HSP 1 Score: 88.2 bits (217), Expect = 8.3e-15
Identity = 43/105 (40.95%), Postives = 61/105 (58.10%), Query Frame = 1


Query: 4   IIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILK 63
           +++  Q+ F+ GRQILD  L+ANE V+ +Q +K KG + KLD+EKA++ + W FL K+LK
Sbjct: 173 VVSADQNAFVRGRQILDASLIANEVVDYWQKRKEKGLVCKLDIEKAYDSINWSFLMKVLK 232

Query: 64  IKMFDHKWIEWMMGCLKTQDTQFLTGCV-ENKLQKGSRRRVGDDV 108
              F  +W+EWM  C  T     LT  V E         R GD +
Sbjct: 233 KMGFGSRWMEWMWWCFSTAKFSVLTNEVPEGFFSSSKGLRQGDPI 277

[Close]

BLAST of Cucsa.163240 vs. TrEMBL
Match: A5CBN4_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_022123 PE=4 SV=1)

HSP 1 Score: 87.8 bits (216), Expect = 1.1e-14
Identity = 41/105 (39.05%), Postives = 63/105 (60.00%), Query Frame = 1


Query: 4    IIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILK 63
            +++  Q+ F+ GRQILD  L+ANE V+ +Q +K KG + KLD+EKA++ + W+FL K+LK
Sbjct: 1225 VVSABQNAFVRGRQILDASLIANEVVDYWQKRKEKGLVCKLDIEKAYDSISWNFLMKVLK 1284

Query: 64   IKMFDHKWIEWMMGCLKT-QDTQFLTGCVENKLQKGSRRRVGDDV 108
               F  +W+EWM  C  T + +  + G  E         R GD +
Sbjct: 1285 KMGFGSRWMEWMWWCFSTAKFSVLINGVPEGFFSSSKGLRQGDPI 1329

[Close]

BLAST of Cucsa.163240 vs. TrEMBL
Match: A5AYQ6_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_019718 PE=4 SV=1)

HSP 1 Score: 87.0 bits (214), Expect = 1.8e-14
Identity = 36/77 (46.75%), Postives = 54/77 (70.13%), Query Frame = 1


Query: 5    IALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILKI 64
            +A  + TF+EGRQILD IL+ANE V++ +  + +G + K+D EKA++ + WDFL+ +LK 
Sbjct: 1186 VAKERGTFVEGRQILDAILIANELVDEKRRSREEGLVFKIDFEKAYDHIDWDFLDHVLKR 1245

Query: 65   KMFDHKWIEWMMGCLKT 82
            K F  +W  WM GCL +
Sbjct: 1246 KGFSSRWRPWMRGCLSS 1262

[Close]

BLAST of Cucsa.163240 vs. TrEMBL
Match: A5BXF3_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_033119 PE=4 SV=1)

HSP 1 Score: 87.0 bits (214), Expect = 1.8e-14
Identity = 40/105 (38.10%), Postives = 63/105 (60.00%), Query Frame = 1


Query: 4   IIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILK 63
           ++++ Q+ F+ GRQILD  L+ANE V+ +Q +K KG + KLD+EKA++ + W FL K+LK
Sbjct: 492 VVSVDQNAFVRGRQILDASLIANEVVDYWQKRKEKGLVCKLDIEKAYDSISWSFLLKVLK 551

Query: 64  IKMFDHKWIEWMMGCLKT-QDTQFLTGCVENKLQKGSRRRVGDDV 108
              F  +W++WM  C  T + + F+ G            R GD +
Sbjct: 552 KMGFGSRWMDWMWWCFSTAKFSVFINGAPAGFFSSSKGLRQGDPI 596

[Close]

BLAST of Cucsa.163240 vs. TAIR10
Match: AT4G20520.1 (AT4G20520.1 RNA binding;RNA-directed DNA polymerases)

HSP 1 Score: 59.3 bits (142), Expect = 2.1e-09
Identity = 32/74 (43.24%), Postives = 46/74 (62.16%), Query Frame = 1


Query: 1  MTCIIALSQSTFIEGRQILDPILVANEAVEDYQTKKN-KGW-ILKLDMEKAFNWVKWDFL 60
          MT +I  +Q++FI GR   D I+   EAV   + KK  KGW +LKLD+EKA++ ++WD+L
Sbjct: 9  MTNLIGPAQASFIPGRVSTDNIVFVQEAVHSMRRKKGVKGWMLLKLDLEKAYDRIRWDYL 68

Query: 61 EKILKIKMFDHKWI 73
          E  L    F   W+
Sbjct: 69 EDTLISAGFPEVWL 82

[Close]

BLAST of Cucsa.163240 vs. NCBI nr
Match: gi|657990185|ref|XP_008387315.1| (PREDICTED: uncharacterized protein LOC103449768 [Malus domestica])

HSP 1 Score: 91.3 bits (225), Expect = 1.4e-15
Identity = 42/102 (41.18%), Postives = 67/102 (65.69%), Query Frame = 1


Query: 5    IALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILKI 64
            I+ +Q  F++ RQILD +L+ANE VE+ + KK +G +LK+D EKA++ V+W FL+++L+ 
Sbjct: 1540 ISQNQGAFVKDRQILDAVLIANEVVEEVRQKKEEGLVLKIDFEKAYDHVEWRFLDEVLQR 1599

Query: 65   KMFDHKWIEWMMGCLKTQD-TQFLTGCVENKLQKGSRRRVGD 106
            K F ++W +WM GCL + + +  + G    K Q     R GD
Sbjct: 1600 KSFGNRWRKWMQGCLSSANFSVLINGRPRGKFQXSRGLRQGD 1641

[Close]

BLAST of Cucsa.163240 vs. NCBI nr
Match: gi|658048925|ref|XP_008360144.1| (PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica])

HSP 1 Score: 91.3 bits (225), Expect = 1.4e-15
Identity = 42/102 (41.18%), Postives = 67/102 (65.69%), Query Frame = 1


Query: 5   IALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILKI 64
           I+ +Q  F++ RQILD +L+ANE VE+ + KK +G +LK+D EKA++ V+W FL+++L+ 
Sbjct: 66  ISQNQGAFVKDRQILDAVLIANEVVEEVRQKKEEGLVLKIDFEKAYDHVEWRFLDEVLQR 125

Query: 65  KMFDHKWIEWMMGCLKTQD-TQFLTGCVENKLQKGSRRRVGD 106
           K F ++W +WM GCL + + +  + G    K Q     R GD
Sbjct: 126 KSFGNRWRKWMQGCLSSANFSVLINGRPRGKFQASRGLRQGD 167

[Close]

BLAST of Cucsa.163240 vs. NCBI nr
Match: gi|658030603|ref|XP_008350747.1| (PREDICTED: uncharacterized protein LOC103414113 [Malus domestica])

HSP 1 Score: 91.3 bits (225), Expect = 1.4e-15
Identity = 42/102 (41.18%), Postives = 67/102 (65.69%), Query Frame = 1


Query: 5    IALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILKI 64
            I+ +Q  F++ RQILD +L+ANE VE+ + KK +G +LK+D EKA++ V+W FL+++L+ 
Sbjct: 1089 ISQNQGAFVKDRQILDAVLIANEVVEEVRQKKEEGLVLKIDFEKAYDHVEWRFLDEVLQR 1148

Query: 65   KMFDHKWIEWMMGCLKTQD-TQFLTGCVENKLQKGSRRRVGD 106
            K F ++W +WM GCL + + +  + G    K Q     R GD
Sbjct: 1149 KSFGNRWRKWMQGCLSSANFSVLINGRPRGKFQASRGLRQGD 1190

[Close]

BLAST of Cucsa.163240 vs. NCBI nr
Match: gi|658031110|ref|XP_008351012.1| (PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica])

HSP 1 Score: 89.7 bits (221), Expect = 4.1e-15
Identity = 45/106 (42.45%), Postives = 64/106 (60.38%), Query Frame = 1


Query: 1   MTCIIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEK 60
           M   I+ SQ  F++GRQILD +LV+NE VE+ + KK +G + K+D EKA++ V W FLE 
Sbjct: 1   MGSTISPSQGAFVKGRQILDAVLVSNEVVEEVRQKKEEGLVFKIDFEKAYDHVDWSFLEX 60

Query: 61  ILKIKMFDHKWIEWMMGCLKTQD-TQFLTGCVENKLQKGSRRRVGD 106
           +L  K F  +W  WM+GCL T + +  + G    K +     R GD
Sbjct: 61  VLLRKGFGFRWRXWMLGCLGTANFSVLINGRPRGKFKASRGLRQGD 106

[Close]

BLAST of Cucsa.163240 vs. NCBI nr
Match: gi|147779484|emb|CAN67711.1| (hypothetical protein VITISV_020427 [Vitis vinifera])

HSP 1 Score: 89.4 bits (220), Expect = 5.3e-15
Identity = 39/88 (44.32%), Postives = 59/88 (67.05%), Query Frame = 1


Query: 4   IIALSQSTFIEGRQILDPILVANEAVEDYQTKKNKGWILKLDMEKAFNWVKWDFLEKILK 63
           +++L Q+ F++GRQILD  L+ANE ++ +Q +K KG I KLD+EKA++ + WDFL KIL+
Sbjct: 727 VVSLDQNAFVKGRQILDASLIANEVIDTWQKRKEKGLICKLDIEKAYDSISWDFLMKILR 786

Query: 64  IKMFDHKWIEWMMGCLKTQDTQFLTGCV 92
              F  +W+EW+  C+ T     L   V
Sbjct: 787 KLGFGSRWMEWIWWCISTAKXSVLVNGV 814

The following BLAST results are available for this feature:

BLAST of Cucsa.163240 vs. TrEMBL


Match Name	E-value	Identity	Description
A5BAV2_VITVI	3.7e-15	44.32	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_020427 PE=4 SV=1	[more]
A5C9R5_VITVI	8.3e-15	40.95	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_040345 PE=4 SV=1	[more]
A5CBN4_VITVI	1.1e-14	39.05	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_022123 PE=4 SV=1	[more]
A5AYQ6_VITVI	1.8e-14	46.75	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_019718 PE=4 SV=1	[more]
A5BXF3_VITVI	1.8e-14	38.10	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_033119 PE=4 SV=1	[more]

BLAST of Cucsa.163240 vs. TAIR10


Match Name	E-value	Identity	Description
AT4G20520.1	2.1e-09	43.24	RNA binding;RNA-directed DNA polymerases	[more]

BLAST of Cucsa.163240 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|657990185\|ref\|XP_008387315.1\|	1.4e-15	41.18	PREDICTED: uncharacterized protein LOC103449768 [Malus domestica]	[more]
gi\|658048925\|ref\|XP_008360144.1\|	1.4e-15	41.18	PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica]	[more]
gi\|658030603\|ref\|XP_008350747.1\|	1.4e-15	41.18	PREDICTED: uncharacterized protein LOC103414113 [Malus domestica]	[more]
gi\|658031110\|ref\|XP_008351012.1\|	4.1e-15	42.45	PREDICTED: putative ribonuclease H protein At1g65750 [Malus domestica]	[more]
gi\|147779484\|emb\|CAN67711.1\|	5.3e-15	44.32	hypothetical protein VITISV_020427 [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR000477	RT_dom

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0090304	nucleic acid metabolic process
cellular_component	GO:0005575	cellular_component
molecular_function	GO:1901363	heterocyclic compound binding
molecular_function	GO:0016787	hydrolase activity
molecular_function	GO:0097159	organic cyclic compound binding

Relationships

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


Feature Name	Unique Name	Type
Cucsa.163240.1	Cucsa.163240.1	mRNA

InterPro

Analysis Name: InterPro Annotations of cucumber (Gy14)
Date Performed: 2017-01-17


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000477	Reverse transcriptase domain	PFAM	PF00078	RVT_1	coord: 4..84 score: 5.
None	No IPR available	PANTHER	PTHR19446	REVERSE TRANSCRIPTASES	coord: 4..78 score: 9.1
None	No IPR available	PANTHER	PTHR19446:SF351	SUBFAMILY NOT NAMED	coord: 4..78 score: 9.1

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
Cucsa.163240	Cucurbita pepo (Zucchini)	cgycpeB0432
Cucsa.163240	Cucurbita pepo (Zucchini)	cgycpeB0434
Cucsa.163240	Bottle gourd (USVL1VR-Ls)	cgylsiB269
Cucsa.163240	Melon (DHL92) v3.6.1	cgymedB274
Cucsa.163240	Silver-seed gourd	carcgyB0311
Cucsa.163240	Silver-seed gourd	carcgyB0764
Cucsa.163240	Cucumber (Chinese Long) v3	cgycucB247
Cucsa.163240	Watermelon (97103) v2	cgywmbB283
Cucsa.163240	Wax gourd	cgywgoB320
Cucsa.163240	Cucurbita maxima (Rimu)	cgycmaB0452
Cucsa.163240	Cucurbita maxima (Rimu)	cgycmaB0459
Cucsa.163240	Cucurbita moschata (Rifu)	cgycmoB0460
Cucsa.163240	Cucurbita moschata (Rifu)	cgycmoB0453
Cucsa.163240	Wild cucumber (PI 183967)	cgycpiB239
Cucsa.163240	Cucumber (Chinese Long) v2	cgycuB233
Cucsa.163240	Melon (DHL92) v3.5.1	cgymeB277
Cucsa.163240	Watermelon (Charleston Gray)	cgywcgB283
Cucsa.163240	Watermelon (97103) v1	cgywmB290