Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0017463

Physical Location & Seq

Genomic Coordinates Forward (+)

84587412 .. 84593246

Gene Structure 5835 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG614400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGCCGTACCAAATTCGGATCACTCCCTCCGGCGACCGCGACCTCCAAACAGTCGGCTGCTCCGACTTCGAAACCCAACTCGGGTCCACAATGATGCACGACTTCGCCGTCACTGAAAACTTCATCGTGATTCCTGACCAGCAGGTGGTGTTCAAGCTTCAGGAGATGATTACCAGGTGGTTGCCGGTGATCTACGACAAGAACAAGAAATCCAGGAGAGTCGCCGTTGTTATGGAAAAAGCCGTTGACGAAGCAACGAAGGCCGTCTCGGATTTGGCAATGGAGGGGGAAGGCACCAAGAGCAAAAATGCGCTGAAGGAGCTAGCTGAAGAACAAGCAGAAGGAAGAGGAGAGGCGCGCGCCGGAAGGAGGAGGAGAATGCTAAACAGGCTGCTGCCACGGCCTCGCAGCCAAAGAAAAATGCAGCTACTGAAGATGAAGAAATGGACCCGACGCAATATTTTGAAAACAGGCTCAAGTATCTTGCTTCAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006066 GO:0006082 GO:0006629 GO:0006714 GO:0006720 GO:0006721 GO:0006950 GO:0007275 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009414 GO:0009415 GO:0009507 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009687 GO:0009688 GO:0009791 GO:0009987 GO:0010035 GO:0010154 GO:0010162 GO:0010431 GO:0010436 GO:0016020 GO:0016053 GO:0016106 GO:0016114 GO:0016491 GO:0016701 GO:0016702 GO:0019752 GO:0021700 GO:0022414 GO:0022611 GO:0031976 GO:0031984 GO:0032501 GO:0032502 GO:0032504 GO:0032787 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043288 GO:0043289 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045549 GO:0046165 GO:0046394 GO:0048316 GO:0048608 GO:0048609 GO:0048731 GO:0048856 GO:0050896 GO:0051213 GO:0055035 GO:0055114 GO:0061458 GO:0071695 GO:0071704 GO:0072330 GO:1901576 GO:1901615 GO:1901617 GO:1901700 GO:1902644 GO:1902645

KEGG Pathways

Metabolic & Signaling

ko00906 ko01100 ko01110 map00906 map01100 map01110

Pfam Domains

Protein Families

RPE65

Protein Analysis

164

Amino Acids

18.86

Weight (kDa)

10.09

Isoelectric Point (pI)

60.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPE65	PF03055	24 - 81	1.5e-09	Retinal pigment epithelial membrane protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0017463)

Species	Orthologous Gene IDs
rosa_multiflora	Rmu_co8059366.1_g000001 Rmu_sc0000399.1_g000028 Rmu_sc0000870.1_g000081 Rmu_sc0008242.1_g000014 Rmu_sc0008673.1_g000014 Rmu_sc0011538.1_g000005 Rmu_sc0011941.1_g000009 Rmu_sc0012461.1_g000005 Rmu_sc0014898.1_g000007 Rmu_ssc0000279.1_g000008
rosa_roxburghii	Rroxscaffold_7G00181920
rosa_samantha	Rh2CG247800 Rh2DG614400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	133
AasI	GACNNNNNNGTC	1 cut(s)	107
Acc36I	ACCTGC	1 cut(s)	133
AccB1I	GGYRCC	1 cut(s)	293
AccB7I	CCANNNNNTGG	1 cut(s)	145
AccII	CGCG	3 cut(s)	39, 358, 360
AciI	CCGC	1 cut(s)	37
AclWI	GGATC	1 cut(s)	26
AcsI	RAATTY	1 cut(s)	12
AcuI	CTGAAG	4 cut(s)	143, 335, 348, 452
AfaI	GTAC	1 cut(s)	8
AfiI	CCNNNNNNNGG	3 cut(s)	81, 145, 369
AgsI	TTSAA	3 cut(s)	154, 466, 491
AjnI	CCWGG	2 cut(s)	173, 212
AloI	GAACNNNNNNTCC	2 cut(s)	194, 226
AluBI	AGCT	4 cut(s)	157, 322, 326, 427
AluI	AGCT	4 cut(s)	157, 322, 326, 427
Alw26I	GTCTC	1 cut(s)	271
AlwI	GGATC	1 cut(s)	26
AlwNI	CAGNNNCTG	1 cut(s)	430
Ama87I	CYCGRG	1 cut(s)	80
AoxI	GGCC	2 cut(s)	261, 401
ApeKI	GCWGC	5 cut(s)	57, 391, 394, 408, 424
ApoI	RAATTY	1 cut(s)	12
AspLEI	GCGC	4 cut(s)	313, 358, 360, 362
AspS9I	GGNCC	2 cut(s)	84, 447
AsuHPI	GGTGA	1 cut(s)	199
AsuII	TTCGAA	1 cut(s)	69
AsuNHI	GCTAGC	1 cut(s)	322
AvaI	CYCGRG	1 cut(s)	80
AvaII	GGWCC	2 cut(s)	84, 447
BanI	GGYRCC	1 cut(s)	293
BbvI	GCAGC	5 cut(s)	44, 378, 381, 420, 436
BceAI	ACGGC	5 cut(s)	92, 209, 227, 248, 416
BciT130I	CCWGG	2 cut(s)	175, 214
BcoDI	GTCTC	1 cut(s)	271
BfaI	CTAG	1 cut(s)	323
BfuAI	ACCTGC	1 cut(s)	133
BisI	GCNGC	5 cut(s)	58, 392, 395, 409, 425
BlsI	GCNGC	5 cut(s)	59, 393, 396, 410, 426
Bme1390I	CCNGG	2 cut(s)	175, 214
Bme18I	GGWCC	2 cut(s)	84, 447
BmeT110I	CYCGRG	1 cut(s)	80
BmgT120I	GGNCC	2 cut(s)	84, 447
BmiI	GGNNCC	3 cut(s)	85, 295, 449
BmrFI	CCNGG	2 cut(s)	175, 214
BmsI	GCATC	1 cut(s)	84
BmtI	GCTAGC	1 cut(s)	326
Bpu14I	TTCGAA	1 cut(s)	69
BpuEI	CTTGAG	1 cut(s)	460
BsaJI	CCNNGG	1 cut(s)	398
Bsc4I	CCNNNNNNNGG	3 cut(s)	81, 145, 369
Bse118I	RCCGGY	1 cut(s)	184
Bse3DI	GCAATG	1 cut(s)	285
BseBI	CCWGG	2 cut(s)	175, 214
BseDI	CCNNGG	1 cut(s)	398
BseLI	CCNNNNNNNGG	3 cut(s)	81, 145, 369
BseMI	GCAATG	1 cut(s)	285
BsePI	GCGCGC	2 cut(s)	356, 358
BseRI	GAGGAG	3 cut(s)	363, 385, 388
BseXI	GCAGC	5 cut(s)	44, 378, 381, 420, 436
Bsh1236I	CGCG	3 cut(s)	39, 358, 360
Bsh1285I	CGRYCG	1 cut(s)	37
BshFI	GGCC	2 cut(s)	263, 403
BshNI	GGYRCC	1 cut(s)	293
BsiEI	CGRYCG	1 cut(s)	37
BsiHKCI	CYCGRG	1 cut(s)	80
BsiSI	CCGG	3 cut(s)	30, 185, 363
BslI	CCNNNNNNNGG	3 cut(s)	81, 145, 369
BsmAI	GTCTC	1 cut(s)	271
BsmBI	CGTCTC	1 cut(s)	271
BsmI	GAATGC	1 cut(s)	384
BsnI	GGCC	2 cut(s)	263, 403
BsoBI	CYCGRG	1 cut(s)	80
Bsp119I	TTCGAA	1 cut(s)	69
Bsp143I	GATC	2 cut(s)	18, 189
BspACI	CCGC	1 cut(s)	37
BspANI	GGCC	2 cut(s)	263, 403
BspFNI	CGCG	3 cut(s)	39, 358, 360
BspLI	GGNNCC	3 cut(s)	85, 295, 449
BspMI	ACCTGC	1 cut(s)	133
BspOI	GCTAGC	1 cut(s)	326
BspPI	GGATC	1 cut(s)	26
BspT104I	TTCGAA	1 cut(s)	69
BspT107I	GGYRCC	1 cut(s)	293
BsrDI	GCAATG	1 cut(s)	285
BsrFI	RCCGGY	1 cut(s)	184
BssAI	RCCGGY	1 cut(s)	184
BssECI	CCNNGG	1 cut(s)	398
BssHII	GCGCGC	2 cut(s)	356, 358
BssMI	GATC	2 cut(s)	18, 189
Bst2UI	CCWGG	2 cut(s)	175, 214
Bst4CI	ACNGT	1 cut(s)	52
Bst6I	CTCTTC	1 cut(s)	340
BstBI	TTCGAA	1 cut(s)	69
BstC8I	GCNNGC	3 cut(s)	324, 358, 360
BstDSI	CCRYGG	1 cut(s)	398
BstFNI	CGCG	3 cut(s)	39, 358, 360
BstHHI	GCGC	4 cut(s)	313, 358, 360, 362
BstKTI	GATC	2 cut(s)	21, 192
BstMAI	GTCTC	1 cut(s)	271
BstMBI	GATC	2 cut(s)	18, 189
BstMCI	CGRYCG	1 cut(s)	37
BstMWI	GCNNNNNNNGC	5 cut(s)	260, 300, 319, 388, 400
BstNI	CCWGG	2 cut(s)	175, 214
BstSCI	CCNGG	2 cut(s)	173, 212
BstUI	CGCG	3 cut(s)	39, 358, 360
BstV1I	GCAGC	5 cut(s)	44, 378, 381, 420, 436
BsuRI	GGCC	2 cut(s)	263, 403
BtgI	CCRYGG	1 cut(s)	398
BtsIMutI	CAGTG	1 cut(s)	111
BveI	ACCTGC	1 cut(s)	133
Cac8I	GCNNGC	3 cut(s)	324, 358, 360
CaiI	CAGNNNCTG	1 cut(s)	430
CfoI	GCGC	4 cut(s)	313, 358, 360, 362
Cfr10I	RCCGGY	1 cut(s)	184
Cfr13I	GGNCC	2 cut(s)	84, 447
CseI	GACGC	1 cut(s)	462
CsiI	ACCWGGT	1 cut(s)	173
Csp6I	GTAC	1 cut(s)	7
CviQI	GTAC	1 cut(s)	7
DpnI	GATC	2 cut(s)	20, 191
DpnII	GATC	2 cut(s)	18, 189
DrdI	GACNNNNNNGTC	1 cut(s)	107
DseDI	GACNNNNNNGTC	1 cut(s)	107
Eam1104I	CTCTTC	1 cut(s)	340
EarI	CTCTTC	1 cut(s)	340
Eco47I	GGWCC	2 cut(s)	84, 447
Eco57I	CTGAAG	4 cut(s)	143, 335, 348, 452
Eco88I	CYCGRG	1 cut(s)	80
EcoRII	CCWGG	2 cut(s)	173, 212
Esp3I	CGTCTC	1 cut(s)	271
FaiI	YATR	1 cut(s)	233
Fnu4HI	GCNGC	5 cut(s)	58, 392, 395, 409, 425
Fsp4HI	GCNGC	5 cut(s)	58, 392, 395, 409, 425
FspBI	CTAG	1 cut(s)	323
GlaI	GCGC	4 cut(s)	312, 357, 359, 361
GluI	GCNGC	5 cut(s)	58, 392, 395, 409, 425
HaeIII	GGCC	2 cut(s)	263, 403
HapII	CCGG	3 cut(s)	30, 185, 363
HgaI	GACGC	1 cut(s)	462
HhaI	GCGC	4 cut(s)	313, 358, 360, 362
Hin6I	GCGC	4 cut(s)	311, 356, 358, 360
HinP1I	GCGC	4 cut(s)	311, 356, 358, 360
HincII	GTYRAC	1 cut(s)	247
HindII	GTYRAC	1 cut(s)	247
HindIII	AAGCTT	1 cut(s)	155
HinfI	GANTC	2 cut(s)	130, 219
HpaII	CCGG	3 cut(s)	30, 185, 363
HphI	GGTGA	1 cut(s)	199
Hpy166II	GTNNAC	2 cut(s)	87, 247
Hpy188I	TCNGA	3 cut(s)	18, 64, 271
Hpy188III	TCNNGA	3 cut(s)	127, 134, 161
Hpy8I	GTNNAC	2 cut(s)	87, 247
Hpy99I	CGWCG	1 cut(s)	456
HpyAV	CCTTC	5 cut(s)	253, 284, 310, 335, 360
HpyCH4III	ACNGT	1 cut(s)	52
HpyCH4V	TGCA	2 cut(s)	97, 424
HpyF10VI	GCNNNNNNNGC	5 cut(s)	260, 300, 319, 388, 400
HspAI	GCGC	4 cut(s)	311, 356, 358, 360
Kzo9I	GATC	2 cut(s)	18, 189
LmnI	GCTCC	2 cut(s)	65, 319
Lsp1109I	GCAGC	5 cut(s)	44, 378, 381, 420, 436
LweI	GCATC	1 cut(s)	84
MabI	ACCWGGT	1 cut(s)	173
MaeI	CTAG	1 cut(s)	323
MaeIII	GTNAC	1 cut(s)	109
MalI	GATC	2 cut(s)	20, 191
MboI	GATC	2 cut(s)	18, 189
MboII	GAAGA	4 cut(s)	341, 357, 445, 451
MluCI	AATT	1 cut(s)	12
MlyI	GAGTC	1 cut(s)	228
MmeI	TCCRAC	1 cut(s)	87
MnlI	CCTC	8 cut(s)	37, 53, 277, 341, 346, 363, 366, 414
MslI	CAYNNNNRTG	1 cut(s)	92
MspI	CCGG	3 cut(s)	30, 185, 363
MspR9I	CCNGG	2 cut(s)	175, 214
Mva1269I	GAATGC	1 cut(s)	384
MvaI	CCWGG	2 cut(s)	175, 214
MvnI	CGCG	3 cut(s)	39, 358, 360
MwoI	GCNNNNNNNGC	5 cut(s)	260, 300, 319, 388, 400
NdeII	GATC	2 cut(s)	18, 189
NheI	GCTAGC	1 cut(s)	322
NlaIV	GGNNCC	3 cut(s)	85, 295, 449
NmuCI	GTSAC	1 cut(s)	109
NspV	TTCGAA	1 cut(s)	69
PaqCI	CACCTGC	1 cut(s)	133
PauI	GCGCGC	2 cut(s)	356, 358
PcsI	WCGNNNNNNNCGW	2 cut(s)	60, 105
PctI	GAATGC	1 cut(s)	384
PfeI	GAWTC	1 cut(s)	130
PflMI	CCANNNNNTGG	1 cut(s)	145
PfoI	TCCNGGA	1 cut(s)	212
PkrI	GCNGC	5 cut(s)	59, 393, 396, 410, 426
PleI	GAGTC	1 cut(s)	227
PpsI	GAGTC	1 cut(s)	227
Psp6I	CCWGG	2 cut(s)	173, 212
PspGI	CCWGG	2 cut(s)	173, 212
PspN4I	GGNNCC	3 cut(s)	85, 295, 449
PspPI	GGNCC	2 cut(s)	84, 447
PstNI	CAGNNNCTG	1 cut(s)	430
PteI	GCGCGC	2 cut(s)	356, 358
RsaI	GTAC	1 cut(s)	8
RsaNI	GTAC	1 cut(s)	7
RseI	CAYNNNNRTG	1 cut(s)	92
SatI	GCNGC	5 cut(s)	58, 392, 395, 409, 425
Sau3AI	GATC	2 cut(s)	18, 189
Sau96I	GGNCC	2 cut(s)	84, 447
SchI	GAGTC	1 cut(s)	228
ScrFI	CCNGG	2 cut(s)	175, 214
SetI	ASST	7 cut(s)	45, 147, 159, 179, 324, 328, 429
SexAI	ACCWGGT	1 cut(s)	173
SfaNI	GCATC	1 cut(s)	84
SfuI	TTCGAA	1 cut(s)	69
SinI	GGWCC	2 cut(s)	84, 447
SmiMI	CAYNNNNRTG	1 cut(s)	92
SmlI	CTYRAG	1 cut(s)	475
SmoI	CTYRAG	1 cut(s)	475
Sse9I	AATT	1 cut(s)	12
SsiI	CCGC	1 cut(s)	37
SspI	AATATT	1 cut(s)	460
SspMI	CTAG	1 cut(s)	323
StyD4I	CCNGG	2 cut(s)	173, 212
TaaI	ACNGT	1 cut(s)	52
TaqI	TCGA	1 cut(s)	69
TasI	AATT	1 cut(s)	12
TfiI	GAWTC	1 cut(s)	130
TscAI	CASTG	1 cut(s)	118
TseFI	GTSAC	1 cut(s)	109
TseI	GCWGC	5 cut(s)	57, 391, 394, 408, 424
Tsp45I	GTSAC	1 cut(s)	109
TspDTI	ATGAA	2 cut(s)	112, 452
TspRI	CASTG	1 cut(s)	118
Van91I	CCANNNNNTGG	1 cut(s)	145
VpaK11BI	GGWCC	2 cut(s)	84, 447
XapI	RAATTY	1 cut(s)	12
XspI	CTAG	1 cut(s)	323

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