CU096630 (transcribed_cluster) Cucumber (Chinese Long) v2 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	CU096630
Type	transcribed_cluster
Organism	Cucumis. sativus (Cucumber (Chinese Long) v2)
Description	Retrovirus-related Pol polyprotein from transposon TNT 1-94
Location	Chr4 : 9872515 .. 9996896 (-)
Sequence length	1134

Genome Viewer

Sequences

The following sequences are available for this feature:

transcribed_cluster sequence

GTATGGTACAAAGGATCTGATCCTTACTGGATACACTGATTCAGATTTCCAAACTGATAAAAGATGCTAGAAAGTCTACATCAGGATCAGTATTTACTCTAAATGGAGGAGCAGTAGTTTGGAGAAGCATAAAGCAAACTTGTATAGCTGATTCCACAATTGAAGTTGAATACGTAGCGGCTTGTGAAGCAGCAAAAGAAGCTATATGGCTAAGAAAATTCTTGACAGATTTGGAAGTCGTTCCAAATATGCATCTACCAATCACTTTATACTGTGACAACAGTGGTGCAGTTGCAAATTCAAGATGTTGGATCGGTATGGCAACCTAGAGGGGGTGAATAGGGTTTAAATAAACTTTTTGACAAATAAAAAGTAAAATCAACTAATTAGATATTTTCTAAAATTTAAATAAAGAACTTTGTAAACTTTGTTTAAATAACAAGATTGATAAAAAGATATGAATGGAAGTATGCAATCAAACTCAACCAATAAGAATATGTAACTAAAATTAAATTAAAAAATAATTAGAAAAGAGTTAGAGAAGAAGACACCGTAATTTTATAGTGGTTCGGTTAAACTCAACCTACATCCACTTTCCCAAGCACCCCTTGGGATTTTGATTGAAAATCTTCTTTGAACTCTTTCCACGGATTTGAGCCGAACCGATTCTTGCTCCTTTTTCGGGTTCAAGAGCAAAACCCGATCCTTTCCACGGGTTAGGATCCAACCGTTACAATATGATGAAATTTTTTAAATCACACAAAAGAAAACTCTCTAAAAGAGTGAGTATACAATTTGAAGCTCACAAATTTAATCCTCACAATACAATAAGAAGCTCTCAAGAATAAGATGAAAAGAATAAAAAATTGGAAGCTTTTAGAGAGAATAACAATGTTGGCTTTTTGCTTGAGGATTGTAAAAGATTTTTAATGATCTTGTGTAAATGTGAAGTATTTAAAAAGAGAGGAAAGATAAATTCAAAATCATTTGGGTCATTAGATATAAGTAAAAGAAAAAATGAATGGTTGAGATTTAAACTTAATTAGCCGTTAGACACAATACAAATAATAATATAATAATATGTCTTTTCAAAATACTTTGTTTTAAAAAGTAAAATTCTAATTAAAGTCTAAC

Library


Library category	ESTs
gynoecious flower library	7
hermaphrodite flower library	6

Homology

[Close]

BLAST of CU096630 vs. Swiss-Prot
Match: POLX_TOBAC (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Nicotiana tabacum PE=2 SV=1)

HSP 1 Score: 74.7 bits (182), Expect = 2.4e-12
Identity = 36/81 (44.44%), Postives = 52/81 (64.20%), Query Frame = 3


Query: 63   DARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEVV 122
            D RKS++G +FT +GGA+ W+S  Q C+A ST E EY+AA E  KE IWL++FL +L + 
Sbjct: 1188 DNRKSSTGYLFTFSGGAISWQSKLQKCVALSTTEAEYIAATETGKEMIWLKRFLQELGLH 1247

Query: 123  PNMHLPITLYCDNSGAVANSR 182
               ++   +YCD+  A+  S+
Sbjct: 1248 QKEYV---VYCDSQSAIDLSK 1265

Query: 183   242
            
Sbjct: 1308  1265

Query: 243   302
            
Sbjct: 1368  1265

Query: 303   306
            
Sbjct: 1428  1265

[Close]

BLAST of CU096630 vs. Swiss-Prot
Match: COPIA_DROME (Copia protein OS=Drosophila melanogaster GN=GIP PE=1 SV=3)

HSP 1 Score: 56.6 bits (135), Expect = 6.8e-07
Identity = 28/77 (36.36%), Postives = 45/77 (58.44%), Query Frame = 3


Query: 69   RKSTSGSVFTL-NGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEVVP 128
            RKST+G +F + +   + W + +Q  +A S+ E EY+A  EA +EA+WL+  LT + +  
Sbjct: 1263 RKSTTGYLFKMFDFNLICWNTKRQNSVAASSTEAEYMALFEAVREALWLKFLLTSINI-- 1322

Query: 129  NMHLPITLYCDNSGAVA 188
             +  PI +Y DN G ++
Sbjct: 1323 KLENPIKIYEDNQGCIS 1337

Query: 189   248
            
Sbjct: 1383  1337

Query: 249   297
            
Sbjct: 1443  1337

[Close]

BLAST of CU096630 vs. TrEMBL
Match: E2GK51_BRYDI (Gag/pol protein (Fragment) OS=Bryonia dioica PE=4 SV=1)

HSP 1 Score: 162.9 bits (411), Expect = 7.5e-37
Identity = 77/82 (93.90%), Postives = 81/82 (98.78%), Query Frame = 3


Query: 60   KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
            KDARKSTSGSVFTLNGGAVVWRS+KQTCIADST+E EYVAACEAAKEA+WLRKFLTDLEV
Sbjct: 1180 KDARKSTSGSVFTLNGGAVVWRSVKQTCIADSTMEAEYVAACEAAKEAVWLRKFLTDLEV 1239

Query: 120  VPNMHLPITLYCDNSGAVANSR 179
            VPNMHLPITLYCDNSGAVANS+
Sbjct: 1240 VPNMHLPITLYCDNSGAVANSK 1261

Query: 180   239
            
Sbjct: 1300  1261

Query: 240   299
            
Sbjct: 1360  1261

Query: 300   306
            
Sbjct: 1420  1261

[Close]

BLAST of CU096630 vs. TrEMBL
Match: W9S7U3_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_027980 PE=4 SV=1)

HSP 1 Score: 142.1 bits (357), Expect = 1.4e-30
Identity = 64/82 (78.05%), Postives = 76/82 (92.68%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTSG+VFTL  GA++WRSIKQ+CIADST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 77  RDSRKSTSGAVFTLGNGAIIWRSIKQSCIADSTVEAEYVAACEAAKEAVWLREFLKELEV 136

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 137 VPNMHEPIILYCDNSGAVANAK 158

Query: 180  239
           
Sbjct: 197  158

Query: 240  299
           
Sbjct: 257  158

Query: 300  306
           
Sbjct: 317  158

[Close]

BLAST of CU096630 vs. TrEMBL
Match: A5AUE7_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_021035 PE=4 SV=1)

HSP 1 Score: 141.4 bits (355), Expect = 2.3e-30
Identity = 63/82 (76.83%), Postives = 76/82 (92.68%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTS +VFTL GGA++WRS+KQTC+ADST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 520 RDSRKSTSEAVFTLGGGAIIWRSVKQTCVADSTMEAEYVAACEAAKEAVWLREFLKELEV 579

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 580 VPNMHEPIRLYCDNSGAVANAK 601

Query: 180  239
           
Sbjct: 640  601

Query: 240  299
           
Sbjct: 700  601

Query: 300  306
           
Sbjct: 760  601

[Close]

BLAST of CU096630 vs. TrEMBL
Match: A5BYL9_VITVI (Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_000740 PE=4 SV=1)

HSP 1 Score: 139.8 bits (351), Expect = 6.8e-30
Identity = 62/82 (75.61%), Postives = 75/82 (91.46%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTS +VFTL GGA++WRS+KQTC+ DST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 82  RDSRKSTSRAVFTLGGGAIIWRSVKQTCVVDSTMEAEYVAACEAAKEAVWLREFLKELEV 141

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 142 VPNMHEPIRLYCDNSGAVANAK 163

Query: 180  239
           
Sbjct: 202  163

Query: 240  299
           
Sbjct: 262  163

Query: 300  306
           
Sbjct: 322  163

[Close]

BLAST of CU096630 vs. TrEMBL
Match: A0A165U314_9ROSI (Gag/pol protein OS=Momordica dioica PE=4 SV=1)

HSP 1 Score: 139.8 bits (351), Expect = 6.8e-30
Identity = 68/82 (82.93%), Postives = 73/82 (89.02%), Query Frame = 3


Query: 60   KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
            KD  KS SG VFTLNGGAV WRS KQTC+ADST E EYVAACEAAKEA+W+RKFLTDL V
Sbjct: 1197 KDDSKSQSG-VFTLNGGAVSWRSSKQTCVADSTCEAEYVAACEAAKEAVWIRKFLTDLGV 1256

Query: 120  VPNMHLPITLYCDNSGAVANSR 179
            VPNMHLPITLYCDNSGAVAN++
Sbjct: 1257 VPNMHLPITLYCDNSGAVANAK 1277

Query: 180   239
            
Sbjct: 1317  1277

Query: 240   299
            
Sbjct: 1377  1277

Query: 300   306
            
Sbjct: 1437  1277

[Close]

BLAST of CU096630 vs. NCBI nr
Match: gi|299474487|gb|ADJ18449.1| (gag/pol protein [Bryonia dioica])

HSP 1 Score: 164.9 bits (416), Expect = 2.8e-37
Identity = 77/82 (93.90%), Postives = 81/82 (98.78%), Query Frame = 3


Query: 60   KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
            KDARKSTSGSVFTLNGGAVVWRS+KQTCIADST+E EYVAACEAAKEA+WLRKFLTDLEV
Sbjct: 1180 KDARKSTSGSVFTLNGGAVVWRSVKQTCIADSTMEAEYVAACEAAKEAVWLRKFLTDLEV 1239

Query: 120  VPNMHLPITLYCDNSGAVANSR 179
            VPNMHLPITLYCDNSGAVANS+
Sbjct: 1240 VPNMHLPITLYCDNSGAVANSK 1261

Query: 180   239
            
Sbjct: 1300  1261

Query: 240   299
            
Sbjct: 1360  1261

Query: 300   306
            
Sbjct: 1420  1261

[Close]

BLAST of CU096630 vs. NCBI nr
Match: gi|703155895|ref|XP_010111323.1| (hypothetical protein L484_027980 [Morus notabilis])

HSP 1 Score: 144.1 bits (362), Expect = 5.1e-31
Identity = 64/82 (78.05%), Postives = 76/82 (92.68%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTSG+VFTL  GA++WRSIKQ+CIADST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 77  RDSRKSTSGAVFTLGNGAIIWRSIKQSCIADSTVEAEYVAACEAAKEAVWLREFLKELEV 136

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 137 VPNMHEPIILYCDNSGAVANAK 158

Query: 180  239
           
Sbjct: 197  158

Query: 240  299
           
Sbjct: 257  158

Query: 300  306
           
Sbjct: 317  158

[Close]

BLAST of CU096630 vs. NCBI nr
Match: gi|147768021|emb|CAN69397.1| (hypothetical protein VITISV_021035 [Vitis vinifera])

HSP 1 Score: 143.3 bits (360), Expect = 8.8e-31
Identity = 63/82 (76.83%), Postives = 76/82 (92.68%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTS +VFTL GGA++WRS+KQTC+ADST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 520 RDSRKSTSEAVFTLGGGAIIWRSVKQTCVADSTMEAEYVAACEAAKEAVWLREFLKELEV 579

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 580 VPNMHEPIRLYCDNSGAVANAK 601

Query: 180  239
           
Sbjct: 640  601

Query: 240  299
           
Sbjct: 700  601

Query: 300  306
           
Sbjct: 760  601

[Close]

BLAST of CU096630 vs. NCBI nr
Match: gi|1019597807|gb|AMY96445.1| (gag/pol protein [Momordica dioica])

HSP 1 Score: 141.7 bits (356), Expect = 2.6e-30
Identity = 68/82 (82.93%), Postives = 73/82 (89.02%), Query Frame = 3


Query: 60   KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
            KD  KS SG VFTLNGGAV WRS KQTC+ADST E EYVAACEAAKEA+W+RKFLTDL V
Sbjct: 1197 KDDSKSQSG-VFTLNGGAVSWRSSKQTCVADSTCEAEYVAACEAAKEAVWIRKFLTDLGV 1256

Query: 120  VPNMHLPITLYCDNSGAVANSR 179
            VPNMHLPITLYCDNSGAVAN++
Sbjct: 1257 VPNMHLPITLYCDNSGAVANAK 1277

Query: 180   239
            
Sbjct: 1317  1277

Query: 240   299
            
Sbjct: 1377  1277

Query: 300   306
            
Sbjct: 1437  1277

[Close]

BLAST of CU096630 vs. NCBI nr
Match: gi|147843740|emb|CAN83735.1| (hypothetical protein VITISV_000740 [Vitis vinifera])

HSP 1 Score: 141.7 bits (356), Expect = 2.6e-30
Identity = 62/82 (75.61%), Postives = 75/82 (91.46%), Query Frame = 3


Query: 60  KDARKSTSGSVFTLNGGAVVWRSIKQTCIADSTIEVEYVAACEAAKEAIWLRKFLTDLEV 119
           +D+RKSTS +VFTL GGA++WRS+KQTC+ DST+E EYVAACEAAKEA+WLR+FL +LEV
Sbjct: 82  RDSRKSTSRAVFTLGGGAIIWRSVKQTCVVDSTMEAEYVAACEAAKEAVWLREFLKELEV 141

Query: 120 VPNMHLPITLYCDNSGAVANSR 179
           VPNMH PI LYCDNSGAVAN++
Sbjct: 142 VPNMHEPIRLYCDNSGAVANAK 163

Query: 180  239
           
Sbjct: 202  163

Query: 240  299
           
Sbjct: 262  163

Query: 300  306
           
Sbjct: 322  163

The following BLAST results are available for this feature:

BLAST of CU096630 vs. Swiss-Prot


Match Name	E-value	Identity	Description
POLX_TOBAC	2.4e-12	44.44	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Nicotiana tabacum...	[more]
COPIA_DROME	6.8e-07	36.36	Copia protein OS=Drosophila melanogaster GN=GIP PE=1 SV=3	[more]

BLAST of CU096630 vs. TrEMBL


Match Name	E-value	Identity	Description
E2GK51_BRYDI	7.5e-37	93.90	Gag/pol protein (Fragment) OS=Bryonia dioica PE=4 SV=1	[more]
W9S7U3_9ROSA	1.4e-30	78.05	Uncharacterized protein OS=Morus notabilis GN=L484_027980 PE=4 SV=1	[more]
A5AUE7_VITVI	2.3e-30	76.83	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_021035 PE=4 SV=1	[more]
A5BYL9_VITVI	6.8e-30	75.61	Putative uncharacterized protein OS=Vitis vinifera GN=VITISV_000740 PE=4 SV=1	[more]
A0A165U314_9ROSI	6.8e-30	82.93	Gag/pol protein OS=Momordica dioica PE=4 SV=1	[more]

BLAST of CU096630 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|299474487\|gb\|ADJ18449.1\|	2.8e-37	93.90	gag/pol protein [Bryonia dioica]	[more]
gi\|703155895\|ref\|XP_010111323.1\|	5.1e-31	78.05	hypothetical protein L484_027980 [Morus notabilis]	[more]
gi\|147768021\|emb\|CAN69397.1\|	8.8e-31	76.83	hypothetical protein VITISV_021035 [Vitis vinifera]	[more]
gi\|1019597807\|gb\|AMY96445.1\|	2.6e-30	82.93	gag/pol protein [Momordica dioica]	[more]
gi\|147843740\|emb\|CAN83735.1\|	2.6e-30	75.61	hypothetical protein VITISV_000740 [Vitis vinifera]	[more]

Annotated Terms

The following terms have been associated with this transcribed_cluster:

Vocabulary: **INTERPRO**
Term	Definition

Relationships

This transcribed_cluster is associated with the following gene feature(s):


Feature Name	Unique Name	Type
Csa4G215340	Csa4G215340	gene
Csa4G219360	Csa4G219360	gene
Csa4G219350	Csa4G219350	gene
Csa4G218350	Csa4G218350	gene
Csa4G218340	Csa4G218340	gene
Csa4G220860	Csa4G220860	gene
Csa4G227360	Csa4G227360	gene

The following EST feature(s) are a part of this transcribed_cluster:


Feature Name	Unique Name	Type
G0072073	G0072073	EST
G0085236	G0085236	EST
G0102877	G0102877	EST
G0154655	G0154655	EST
G0168338	G0168338	EST
G0193710	G0193710	EST
G0194935	G0194935	EST
H0004034	H0004034	EST
H0004181	H0004181	EST
H0078466	H0078466	EST
H0092980	H0092980	EST
H0124878	H0124878	EST
H0133677	H0133677	EST

InterPro

Analysis Name: InterPro Annotations of cucumber unigene v3
Date Performed: 2016-11-16


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR11439	GAG-POL-RELATED RETROTRANSPOSON	coord: 3..88 score: 1.8
None	No IPR available	PANTHER	PTHR11439:SF192	SUBFAMILY NOT NAMED	coord: 3..88 score: 1.8