Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0000603

Physical Location & Seq

Genomic Coordinates Reverse (-)

5113950 .. 5114330

Gene Structure 381 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0067600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 381 bp

ATGCTGGCAGGAGGTGCTTGCCCTCTAAGTGGTCTATTATCGGCGGAACATGGGGAGGTTTTAGCTTGTCAAAAAGCCCTGGAATTTGCGTCGGCTCACTCCTTCTTACCTGCGATTCTGGAAACAGATGCCTTGGCAGTTCAAGGAAAATTAAGTGCAGCTATAGGTACTAATAATTCCGTGTTGGGACGGATTTATGACGATCTGGTGATCATGTTGGCATCTCAACCTTCTGTGTCAGTCGCCCATGTTGGCAGGTTGGGCAATACTGTTGCTCATTGTCTAGCAGCTCATGCTTGTGGTTTGCAGCAGGACTGCTTTTATTTCTCTAGTCTGTCTTTTCTTCTAGCTGCAGTAGCAGCTGAACTTTGCATTGTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000902 GO:0000904 GO:0003006 GO:0003674 GO:0005215 GO:0005575 GO:0005623 GO:0005886 GO:0005911 GO:0006807 GO:0006810 GO:0006857 GO:0008150 GO:0008152 GO:0009506 GO:0009653 GO:0009826 GO:0009856 GO:0009860 GO:0009932 GO:0009987 GO:0015833 GO:0016020 GO:0016043 GO:0016049 GO:0022414 GO:0022857 GO:0030054 GO:0030154 GO:0032501 GO:0032502 GO:0032989 GO:0035672 GO:0035673 GO:0040007 GO:0042886 GO:0042887 GO:0042937 GO:0042938 GO:0042939 GO:0044464 GO:0044706 GO:0048468 GO:0048588 GO:0048589 GO:0048856 GO:0048868 GO:0048869 GO:0051179 GO:0051234 GO:0051704 GO:0055044 GO:0055085 GO:0060560 GO:0071702 GO:0071705 GO:0071840 GO:0071944 GO:1904680

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PTR2

Protein Analysis

126

Amino Acids

12.9

Weight (kDa)

5.29

Isoelectric Point (pI)

33.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	5 - 99	8.6e-11	Reverse transcriptase-like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Image

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Publication-ready

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Orthologous Genes (Group: OG0000603)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G54140 AT3G54140 AT5G01180 AT5G01180 AT5G01180
fragaria_vesca	FvH4_3g38120 FvH4_6g11961 FvH4_6g11970 FvH4_6g11970 FvH4_6g11970 FvH4_6g11970 FvH4_7g07580 FvH4_7g07580
malus_domestica	MD03G1076900.v1.1 MD04G1147500.v1.1 MD11G1081100.v1.1 MD11G1081200.v1.1 MD12G1160700.v1.1 MD12G1160900.v1.1
prunus_persica	Prupe.6G061500_v2.0.a1 Prupe.6G271100_v2.0.a1 Prupe.6G271200_v2.0.a1
pyrus_communis	pycom03g06080 pycom11g06920 pycom11g06940 pycom12g15250 pycom12g15270
rosa_chinensis	RchiOBHm_Chr1g0343091 RchiOBHm_Chr3g0463781 RchiOBHm_Chr3g0463791 RchiOBHm_Chr5g0068471 RchiOBHm_Chr5g0068501
rosa_laevigata	RLG00000024756 RLG00000024757 RLG00000029203 RLG00000035978 RLG00000035979
rosa_multiflora	Rmu_co8449979.1_g000001 Rmu_sc0000313.1_g000001 Rmu_sc0003221.1_g000016 Rmu_sc0003221.1_g000025 Rmu_sc0003221.1_g000026 Rmu_sc0004796.1_g000013 Rmu_sc0005087.1_g000011 Rmu_sc0008896.1_g000017 Rmu_sc0010201.1_g000001 Rmu_sc0017585.1_g000005
rosa_roxburghii	Rroxscaffold_1G00012300 Rroxscaffold_1G00012310 Rroxscaffold_1G00013040 Rroxscaffold_1G00013050 Rroxscaffold_4G00313320 Rroxscaffold_6G00416290 Rroxscaffold_6G00416300
rosa_rugosa	Rorug01G0144300.1 Rorug03G0067500 Rorug03G0067600 Rorug03G0067700 Rorug05G0390200 Rorug05G0390300 Rorug05G0390400.1 Rorug05G0390500 Rorug05G0390600 Rorug05G0390700
rosa_samantha	Rh1BG127900 Rh1CG150400 Rh1DG164100 Rh3AG124700 Rh3AG124800 Rh3CG131600 Rh3DG130100 Rh3DG130200 Rh5CG488500 Rh5DG480400 Rh5DG480600
rosa_wichuraiana	Rw1G013410 Rw3G010540 Rw3G010550 Rw5G041900 Rw5G041920

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	118, 246
AciI	CCGC	1 cut(s)	44
AcsI	RAATTY	1 cut(s)	83
AfaI	GTAC	1 cut(s)	169
AfiI	CCNNNNNNNGG	1 cut(s)	29
AgsI	TTSAA	1 cut(s)	143
AjnI	CCWGG	1 cut(s)	78
AluBI	AGCT	5 cut(s)	65, 161, 290, 350, 362
AluI	AGCT	5 cut(s)	65, 161, 290, 350, 362
ApeKI	GCWGC	5 cut(s)	158, 287, 307, 350, 359
ApoI	RAATTY	1 cut(s)	83
AsuHPI	GGTGA	1 cut(s)	220
BbvI	GCAGC	5 cut(s)	170, 299, 319, 337, 371
BciT130I	CCWGG	1 cut(s)	80
BclI	TGATCA	1 cut(s)	210
BfaI	CTAG	3 cut(s)	284, 330, 347
BfmI	CTRYAG	2 cut(s)	162, 351
BfuAI	ACCTGC	2 cut(s)	118, 246
BisI	GCNGC	5 cut(s)	159, 288, 308, 351, 360
BlsI	GCNGC	5 cut(s)	160, 289, 309, 352, 361
Bme1390I	CCNGG	1 cut(s)	80
BmrFI	CCNGG	1 cut(s)	80
BmsI	GCATC	2 cut(s)	118, 230
BsaJI	CCNNGG	2 cut(s)	78, 132
Bsc4I	CCNNNNNNNGG	1 cut(s)	29
BseBI	CCWGG	1 cut(s)	80
BseDI	CCNNGG	2 cut(s)	78, 132
BseLI	CCNNNNNNNGG	1 cut(s)	29
BseXI	GCAGC	5 cut(s)	170, 299, 319, 337, 371
BsgI	GTGCAG	1 cut(s)	177
BslFI	GGGAC	1 cut(s)	201
BslI	CCNNNNNNNGG	1 cut(s)	29
BsmFI	GGGAC	1 cut(s)	201
Bsp143I	GATC	2 cut(s)	202, 210
BspACI	CCGC	1 cut(s)	44
BspMAI	CTGCAG	1 cut(s)	355
BspMI	ACCTGC	2 cut(s)	118, 246
BssECI	CCNNGG	2 cut(s)	78, 132
BssMI	GATC	2 cut(s)	202, 210
BssT1I	CCWWGG	1 cut(s)	132
Bst2UI	CCWGG	1 cut(s)	80
Bst4CI	ACNGT	1 cut(s)	271
BstAPI	GCANNNNNTGC	2 cut(s)	14, 293
BstC8I	GCNNGC	2 cut(s)	6, 19
BstDEI	CTNAG	1 cut(s)	26
BstKTI	GATC	2 cut(s)	205, 213
BstMBI	GATC	2 cut(s)	202, 210
BstMWI	GCNNNNNNNGC	5 cut(s)	14, 261, 293, 356, 359
BstNI	CCWGG	1 cut(s)	80
BstSCI	CCNGG	1 cut(s)	78
BstSFI	CTRYAG	2 cut(s)	162, 351
BstV1I	GCAGC	5 cut(s)	170, 299, 319, 337, 371
BveI	ACCTGC	2 cut(s)	118, 246
Cac8I	GCNNGC	2 cut(s)	6, 19
CseI	GACGC	1 cut(s)	78
Csp6I	GTAC	1 cut(s)	168
CviAII	CATG	4 cut(s)	50, 214, 248, 293
CviJI	RGCY	7 cut(s)	65, 77, 95, 161, 290, 350, 362
CviKI_1	RGCY	7 cut(s)	65, 77, 95, 161, 290, 350, 362
CviQI	GTAC	1 cut(s)	168
DdeI	CTNAG	1 cut(s)	26
DpnI	GATC	2 cut(s)	204, 212
DpnII	GATC	2 cut(s)	202, 210
EciI	GGCGGA	1 cut(s)	59
Eco130I	CCWWGG	1 cut(s)	132
EcoRII	CCWGG	1 cut(s)	78
EcoT14I	CCWWGG	1 cut(s)	132
ErhI	CCWWGG	1 cut(s)	132
FaeI	CATG	4 cut(s)	53, 217, 251, 296
FaiI	YATR	6 cut(s)	51, 164, 198, 215, 249, 294
FaqI	GGGAC	1 cut(s)	201
FatI	CATG	4 cut(s)	49, 213, 247, 292
FbaI	TGATCA	1 cut(s)	210
Fnu4HI	GCNGC	5 cut(s)	159, 288, 308, 351, 360
Fsp4HI	GCNGC	5 cut(s)	159, 288, 308, 351, 360
FspBI	CTAG	3 cut(s)	284, 330, 347
GluI	GCNGC	5 cut(s)	159, 288, 308, 351, 360
HgaI	GACGC	1 cut(s)	78
Hin1II	CATG	4 cut(s)	53, 217, 251, 296
HinfI	GANTC	1 cut(s)	115
HphI	GGTGA	1 cut(s)	220
Hpy188III	TCNNGA	1 cut(s)	119
Hpy99I	CGWCG	1 cut(s)	94
HpyAV	CCTTC	2 cut(s)	112, 240
HpyCH4III	ACNGT	1 cut(s)	271
HpyCH4V	TGCA	4 cut(s)	158, 307, 353, 372
HpyF10VI	GCNNNNNNNGC	5 cut(s)	14, 261, 293, 356, 359
HpyF3I	CTNAG	1 cut(s)	26
Hsp92II	CATG	4 cut(s)	53, 217, 251, 296
Ksp22I	TGATCA	1 cut(s)	210
Kzo9I	GATC	2 cut(s)	202, 210
LpnPI	CCDG	7 cut(s)	65, 92, 104, 123, 191, 241, 296
Lsp1109I	GCAGC	5 cut(s)	170, 299, 319, 337, 371
LweI	GCATC	2 cut(s)	118, 230
MaeI	CTAG	3 cut(s)	284, 330, 347
MalI	GATC	2 cut(s)	204, 212
MboI	GATC	2 cut(s)	202, 210
MboII	GAAGA	1 cut(s)	335
MluCI	AATT	3 cut(s)	83, 149, 175
MnlI	CCTC	3 cut(s)	5, 33, 49
MseI	TTAA	1 cut(s)	152
MslI	CAYNNNNRTG	1 cut(s)	297
MspA1I	CMGCKG	1 cut(s)	362
MspR9I	CCNGG	1 cut(s)	80
MvaI	CCWGG	1 cut(s)	80
MwoI	GCNNNNNNNGC	5 cut(s)	14, 261, 293, 356, 359
NdeII	GATC	2 cut(s)	202, 210
NlaIII	CATG	4 cut(s)	53, 217, 251, 296
PfeI	GAWTC	1 cut(s)	115
PkrI	GCNGC	5 cut(s)	160, 289, 309, 352, 361
Psp6I	CCWGG	1 cut(s)	78
PspGI	CCWGG	1 cut(s)	78
PstI	CTGCAG	1 cut(s)	355
PvuII	CAGCTG	1 cut(s)	362
RsaI	GTAC	1 cut(s)	169
RsaNI	GTAC	1 cut(s)	168
RseI	CAYNNNNRTG	1 cut(s)	297
SaqAI	TTAA	1 cut(s)	152
SatI	GCNGC	5 cut(s)	159, 288, 308, 351, 360
Sau3AI	GATC	2 cut(s)	202, 210
ScrFI	CCNGG	1 cut(s)	80
SfaNI	GCATC	2 cut(s)	118, 230
SfcI	CTRYAG	2 cut(s)	162, 351
SmiMI	CAYNNNNRTG	1 cut(s)	297
Sse9I	AATT	3 cut(s)	83, 149, 175
SsiI	CCGC	1 cut(s)	44
SspMI	CTAG	3 cut(s)	284, 330, 347
StyD4I	CCNGG	1 cut(s)	78
StyI	CCWWGG	1 cut(s)	132
TaaI	ACNGT	1 cut(s)	271
TasI	AATT	3 cut(s)	83, 149, 175
TfiI	GAWTC	1 cut(s)	115
Tru1I	TTAA	1 cut(s)	152
Tru9I	TTAA	1 cut(s)	152
TseI	GCWGC	5 cut(s)	158, 287, 307, 350, 359
TspGWI	ACGGA	2 cut(s)	169, 205
XapI	RAATTY	1 cut(s)	83
XspI	CTAG	3 cut(s)	284, 330, 347

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.