Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001225

Physical Location & Seq

Genomic Coordinates Reverse (-)

26232858 .. 26235738

Gene Structure 2881 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028682

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1416 bp

ATGCACCTTTTCGACGGTCACGGCTACCTCAGGGCTTTTACTTTCGATGGGGTTAATGGGGTTAAGTTCAGTGTCAAGTTCATGGCGAGAGAGGAGAGAGTTTGGAACACCAAGGTGATGAAAAACGTGGCGAATACTAGTGTGTTGAGCTGGGGTGGGAGGCTGTTGTGCTTGTGGGATGGCGGGGAACCATACGAAATTGAACCGGAGAGGTTGGATACGATCGGGAAGGTCAAGCTGATGGATGATTGGGATTCAGTGGTGGAGAGGAGAAGCGATGGTGGTGATGTATGGGATGTTGCAGCAAGGTTGCTGAAGCCGATTTTGTACGGAGTGTTTAAGATGCCAGTGAAGCGATTATTAGCTCATTATAAGTTTGATGCTCGCAGACATAGACTTCTTTTAATGTCATGTAATGCAGAAGATATTTTTTTACCACGCAACAATTTTACATTTTATGAATTTGATTCAAATTTTAAGGTGGTTGGAAAGAAAGAATTCATCATCCCTGATCACTTGATGATTCATGATTGGGTTTTCACAGCCACTAGTTATATACTATTTGCTAATCGTGTCAAGCTTGACGTCACCGATAGTGCAATGACTTCATTTTGTGGAATTACTCCAACAATTGCAGCATTATCAGTGAACCGTAGCAAGGAAACTTCTCCCATATATGTGCTTCCTCGGTTTCCTAATGAAGTGAATTATAATCGAGATTGGAGAGTGCCTGTTGAAGCTCCTTCACAATTTTGGCTGCTACATGTAGGCAATGCCTATGAGAGTTTGGATGAAAATGGGAATTCGGAGATCCAAATACAAGCTTCTGTTTGCTCTTACGAGTGGTTCACATTACATAAATTACTTGGGTATGATTGGCAAAGTGGTAAACTGGACCCTTCGATTATGTACTTAAATGGAAACAAAAGCAAGAAAATGCCTCACCTTGTCCAGGTTTCCATCAACTTGGATACCGATGGGATCTGTCAAAGATGTGATATTGAGCCATTAAACCAATGGATCAAGTCATCAGATTTTCCCGTCATAAATCCAGCATTTTCAGGCATCAAGAATAAAAACATATATGCAGCAGCTTTTTCAGGTTCTCGCAGGGCATTGCCAAACTTTCCATATGACATGGTGGTGAAGCTCAATCTTTCAACTAAATCTGTGCACACATGGTCTTCTGATAGTCGAAGATTTATCGGCGAACCCATTTTCATATCCAAAGGTTCCGAAGAAGATGAGGGTTACATTCTTGTGGTTGAGTATGCAGTTGCAGTTCAAAGGTGCAATCTGGTTATCTTGGATTCAAAGAGGATTGGAGCGGCTGATGCACTTGTGGCAAGACTTGAAGTCCCCAAACACCTAAATTTTCCTCTTGGTTTTCATGGTTTCTGGGTCAGTAACGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001763 GO:0003674 GO:0003824 GO:0006629 GO:0006714 GO:0006720 GO:0006721 GO:0007275 GO:0008150 GO:0008152 GO:0008299 GO:0008300 GO:0008610 GO:0009056 GO:0009058 GO:0009653 GO:0009719 GO:0009725 GO:0009733 GO:0009987 GO:0010016 GO:0010033 GO:0010223 GO:0010346 GO:0010436 GO:0010817 GO:0016042 GO:0016106 GO:0016114 GO:0016119 GO:0016121 GO:0016491 GO:0016701 GO:0016702 GO:0018130 GO:0032501 GO:0032502 GO:0042214 GO:0042221 GO:0042445 GO:0042446 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044249 GO:0044255 GO:0045549 GO:0046247 GO:0046483 GO:0048367 GO:0048646 GO:0048731 GO:0048856 GO:0050896 GO:0051213 GO:0055114 GO:0065007 GO:0065008 GO:0071704 GO:1901334 GO:1901336 GO:1901360 GO:1901362 GO:1901575 GO:1901576 GO:1901600 GO:1901601 GO:1905393

KEGG Pathways

Metabolic & Signaling

ko00906 map00906

Pfam Domains

Protein Families

RPE65

Protein Analysis

472

Amino Acids

53.82

Weight (kDa)

6.87

Isoelectric Point (pI)

44.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPE65	PF03055	2 - 469	2.2e-69	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: OG0001225)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44990 AT2G44990 AT2G44990
fragaria_vesca	FvH4_7g10450
malus_domestica	MD07G1110600.v1.1
prunus_persica	Prupe.2G133900_v2.0.a1
pyrus_communis	pycom07g09530
rosa_chinensis	RchiOBHm_Chr1g0342921 RchiOBHm_Chr1g0342931 RchiOBHm_Chr1g0348141 RchiOBHm_Chr1g0348171 RchiOBHm_Chr1g0348201 RchiOBHm_Chr2g0136091 RchiOBHm_Chr7g0229961
rosa_laevigata	RLG00000028678 RLG00000028682 RLG00000028684 RLG00000028685 RLG00000028686
rosa_multiflora	Rmu_co8414565.1_g000001 Rmu_co8499605.1_g000001 Rmu_sc0001563.1_g000031 Rmu_sc0001890.1_g000013 Rmu_sc0001890.1_g000015 Rmu_sc0002209.1_g000017 Rmu_sc0003991.1_g000009 Rmu_sc0004502.1_g000011 Rmu_sc0004502.1_g000018 Rmu_sc0005046.1_g000018
rosa_roxburghii	Rroxscaffold_4G00307110 Rroxscaffold_4G00307160 Rroxscaffold_4G00307170 Rroxscaffold_4G00307180
rosa_rugosa	Rorug01G0145700.1 Rorug01G0192700 Rorug01G0192900 Rorug01G0193500
rosa_samantha	Rh1AG095900 Rh1AG210700 Rh1AG210800 Rh1BG176200 Rh1BG176800 Rh1BG177100 Rh1BG177200 Rh1CG195000 Rh1CG195100 Rh1DG205900 Rh1DG206300 Rh1DG206600 Rh1DG206700 Rh3DG305500
rosa_wichuraiana	Rw0G011410 Rw1G017570 Rw1G017580 Rw1G017590 Rw1G017800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	372, 711
AatII	GACGTC	1 cut(s)	588
AccBSI	CCGCTC	1 cut(s)	1328
AciI	CCGC	2 cut(s)	183, 1328
AclWI	GGATC	3 cut(s)	805, 989, 1028
AcsI	RAATTY	5 cut(s)	461, 472, 497, 802, 1372
AcuI	CTGAAG	1 cut(s)	335
AcyI	GRCGYC	1 cut(s)	585
AfaI	GTAC	2 cut(s)	329, 911
AfiI	CCNNNNNNNGG	2 cut(s)	658, 952
AflIII	ACRYGT	1 cut(s)	763
AgsI	TTSAA	7 cut(s)	203, 471, 737, 1161, 1286, 1314, 1355
AhdI	GACNNNNNGTC	1 cut(s)	1355
AhlI	ACTAGT	2 cut(s)	137, 548
AjnI	CCWGG	1 cut(s)	951
AleI	CACNNNNGTG	1 cut(s)	113
AluBI	AGCT	8 cut(s)	150, 238, 365, 580, 740, 824, 1094, 1150
AluI	AGCT	8 cut(s)	150, 238, 365, 580, 740, 824, 1094, 1150
Alw21I	GWGCWC	1 cut(s)	1176
Alw44I	GTGCAC	1 cut(s)	1172
AlwI	GGATC	3 cut(s)	805, 989, 1028
ApaLI	GTGCAC	1 cut(s)	1172
ApeKI	GCWGC	5 cut(s)	302, 635, 757, 1088, 1091
ApoI	RAATTY	5 cut(s)	461, 472, 497, 802, 1372
Asp700I	GAANNNNTTC	1 cut(s)	497
AspS9I	GGNCC	1 cut(s)	895
AsuHPI	GGTGA	5 cut(s)	127, 296, 580, 935, 1156
AvaII	GGWCC	1 cut(s)	895
AxyI	CCTNAGG	1 cut(s)	29
BaeGI	GKGCMC	1 cut(s)	1176
BbsI	GAAGAC	1 cut(s)	1176
Bbv12I	GWGCWC	1 cut(s)	1176
BbvI	GCAGC	5 cut(s)	314, 647, 744, 1100, 1103
BccI	CCATC	6 cut(s)	41, 173, 235, 272, 968, 971
BceAI	ACGGC	1 cut(s)	37
BciT130I	CCWGG	1 cut(s)	953
BciVI	GTATCC	2 cut(s)	211, 964
BclI	TGATCA	1 cut(s)	511
BcuI	ACTAGT	2 cut(s)	137, 548
BfaI	CTAG	2 cut(s)	138, 549
BfuI	GTATCC	2 cut(s)	211, 964
BisI	GCNGC	6 cut(s)	303, 636, 758, 1089, 1092, 1329
BlsI	GCNGC	6 cut(s)	304, 637, 759, 1090, 1093, 1330
Bme1390I	CCNGG	1 cut(s)	953
Bme18I	GGWCC	1 cut(s)	895
BmeRI	GACNNNNNGTC	1 cut(s)	1355
BmgT120I	GGNCC	1 cut(s)	895
BmiI	GGNNCC	3 cut(s)	189, 897, 1234
BmrFI	CCNGG	1 cut(s)	953
BmsI	GCATC	4 cut(s)	333, 370, 1074, 1324
BpiI	GAAGAC	1 cut(s)	1176
BsaHI	GRCGYC	1 cut(s)	585
BsaJI	CCNNGG	2 cut(s)	111, 686
BsaWI	WCCGGW	1 cut(s)	205
Bsc4I	CCNNNNNNNGG	2 cut(s)	658, 952
Bse1I	ACTGG	2 cut(s)	347, 897
Bse21I	CCTNAGG	1 cut(s)	29
Bse3DI	GCAATG	3 cut(s)	606, 778, 1115
BseBI	CCWGG	1 cut(s)	953
BseDI	CCNNGG	2 cut(s)	111, 686
BseGI	GGATG	5 cut(s)	184, 250, 301, 504, 796
BseLI	CCNNNNNNNGG	2 cut(s)	658, 952
BseMI	GCAATG	3 cut(s)	606, 778, 1115
BseMII	CTCAG	1 cut(s)	43
BseNI	ACTGG	2 cut(s)	347, 897
BseRI	GAGGAG	2 cut(s)	107, 283
BseSI	GKGCMC	1 cut(s)	1176
BseXI	GCAGC	5 cut(s)	314, 647, 744, 1100, 1103
BseYI	CCCAGC	1 cut(s)	150
Bsh1285I	CGRYCG	1 cut(s)	225
BsiEI	CGRYCG	1 cut(s)	225
BsiHKAI	GWGCWC	1 cut(s)	1176
BsiSI	CCGG	1 cut(s)	206
BslFI	GGGAC	1 cut(s)	1343
BslI	CCNNNNNNNGG	2 cut(s)	658, 952
BsmFI	GGGAC	1 cut(s)	1343
Bsp1286I	GDGCHC	1 cut(s)	1176
Bsp143I	GATC	5 cut(s)	222, 511, 810, 981, 1020
BspACI	CCGC	2 cut(s)	183, 1328
BspCNI	CTCAG	1 cut(s)	42
BspHI	TCATGA	1 cut(s)	526
BspLI	GGNNCC	3 cut(s)	189, 897, 1234
BspPI	GGATC	3 cut(s)	805, 989, 1028
BsrBI	CCGCTC	1 cut(s)	1328
BsrDI	GCAATG	3 cut(s)	606, 778, 1115
BsrI	ACTGG	2 cut(s)	347, 897
BssECI	CCNNGG	2 cut(s)	111, 686
BssMI	GATC	5 cut(s)	222, 511, 810, 981, 1020
BssNI	GRCGYC	1 cut(s)	585
BssT1I	CCWWGG	1 cut(s)	111
Bst2UI	CCWGG	1 cut(s)	953
Bst4CI	ACNGT	2 cut(s)	17, 653
BstACI	GRCGYC	1 cut(s)	585
BstC8I	GCNNGC	1 cut(s)	385
BstDEI	CTNAG	1 cut(s)	29
BstENI	CCTNNNNNAGG	1 cut(s)	950
BstF5I	GGATG	5 cut(s)	184, 250, 301, 504, 796
BstKTI	GATC	5 cut(s)	225, 514, 813, 984, 1023
BstMBI	GATC	5 cut(s)	222, 511, 810, 981, 1020
BstMCI	CGRYCG	1 cut(s)	225
BstMWI	GCNNNNNNNGC	3 cut(s)	352, 1334, 1343
BstNI	CCWGG	1 cut(s)	953
BstNSI	RCATGY	1 cut(s)	767
BstSCI	CCNGG	1 cut(s)	951
BstSLI	GKGCMC	1 cut(s)	1176
BstV1I	GCAGC	5 cut(s)	314, 647, 744, 1100, 1103
BstV2I	GAAGAC	1 cut(s)	1176
BstX2I	RGATCY	2 cut(s)	810, 981
BstXI	CCANNNNNNTGG	1 cut(s)	967
BstYI	RGATCY	2 cut(s)	810, 981
Bsu36I	CCTNAGG	1 cut(s)	29
BsuI	GTATCC	2 cut(s)	211, 964
BtgZI	GCGATG	1 cut(s)	291
BtsCI	GGATG	5 cut(s)	184, 250, 301, 504, 796
BtsIMutI	CAGTG	4 cut(s)	76, 264, 354, 651
Cac8I	GCNNGC	1 cut(s)	385
CciI	TCATGA	1 cut(s)	526
Cfr13I	GGNCC	1 cut(s)	895
Csp6I	GTAC	2 cut(s)	328, 910
CviAII	CATG	7 cut(s)	82, 411, 527, 764, 1138, 1179, 1391
CviQI	GTAC	2 cut(s)	328, 910
DdeI	CTNAG	1 cut(s)	29
DpnI	GATC	5 cut(s)	224, 513, 812, 983, 1022
DpnII	GATC	5 cut(s)	222, 511, 810, 981, 1020
DriI	GACNNNNNGTC	1 cut(s)	1355
Eam1105I	GACNNNNNGTC	1 cut(s)	1355
Eco130I	CCWWGG	1 cut(s)	111
Eco47I	GGWCC	1 cut(s)	895
Eco57I	CTGAAG	1 cut(s)	335
Eco81I	CCTNAGG	1 cut(s)	29
EcoNI	CCTNNNNNAGG	1 cut(s)	950
EcoRI	GAATTC	2 cut(s)	497, 802
EcoRII	CCWGG	1 cut(s)	951
EcoT14I	CCWWGG	1 cut(s)	111
ErhI	CCWWGG	1 cut(s)	111
FaeI	CATG	7 cut(s)	85, 414, 530, 767, 1141, 1182, 1394
FaqI	GGGAC	1 cut(s)	1343
FatI	CATG	7 cut(s)	81, 410, 526, 763, 1137, 1178, 1390
FauI	CCCGC	1 cut(s)	176
FauNDI	CATATG	1 cut(s)	1132
FbaI	TGATCA	1 cut(s)	511
Fnu4HI	GCNGC	6 cut(s)	303, 636, 758, 1089, 1092, 1329
FokI	GGATG	5 cut(s)	191, 257, 308, 491, 803
Fsp4HI	GCNGC	6 cut(s)	303, 636, 758, 1089, 1092, 1329
FspBI	CTAG	2 cut(s)	138, 549
GluI	GCNGC	6 cut(s)	303, 636, 758, 1089, 1092, 1329
GsaI	CCCAGC	1 cut(s)	154
HapII	CCGG	1 cut(s)	206
Hin1I	GRCGYC	1 cut(s)	585
Hin1II	CATG	7 cut(s)	85, 414, 530, 767, 1141, 1182, 1394
HindIII	AAGCTT	2 cut(s)	578, 822
HinfI	GANTC	4 cut(s)	254, 467, 523, 1310
HpaII	CCGG	1 cut(s)	206
HphI	GGTGA	5 cut(s)	127, 296, 580, 935, 1156
Hpy166II	GTNNAC	4 cut(s)	649, 849, 890, 1174
Hpy188I	TCNGA	4 cut(s)	808, 1033, 1189, 1237
Hpy188III	TCNNGA	4 cut(s)	226, 527, 716, 1069
Hpy8I	GTNNAC	4 cut(s)	649, 849, 890, 1174
Hpy99I	CGWCG	1 cut(s)	17
HpyAV	CCTTC	3 cut(s)	223, 753, 909
HpyCH4III	ACNGT	2 cut(s)	17, 653
HpyCH4IV	ACGT	2 cut(s)	126, 585
HpyF10VI	GCNNNNNNNGC	3 cut(s)	352, 1334, 1343
HpyF3I	CTNAG	1 cut(s)	29
HpySE526I	ACGT	2 cut(s)	126, 585
Hsp92I	GRCGYC	1 cut(s)	585
Hsp92II	CATG	7 cut(s)	85, 414, 530, 767, 1141, 1182, 1394
Ksp22I	TGATCA	1 cut(s)	511
Kzo9I	GATC	5 cut(s)	222, 511, 810, 981, 1020
LmnI	GCTCC	2 cut(s)	745, 1325
Lsp1109I	GCAGC	5 cut(s)	314, 647, 744, 1100, 1103
LweI	GCATC	4 cut(s)	333, 370, 1074, 1324
MaeI	CTAG	2 cut(s)	138, 549
MaeII	ACGT	2 cut(s)	126, 585
MaeIII	GTNAC	4 cut(s)	17, 586, 1250, 1406
MalI	GATC	5 cut(s)	224, 513, 812, 983, 1022
MbiI	CCGCTC	1 cut(s)	1328
MboI	GATC	5 cut(s)	222, 511, 810, 981, 1020
MboII	GAAGA	5 cut(s)	434, 1176, 1209, 1250, 1253
MfeI	CAATTG	1 cut(s)	630
MflI	RGATCY	2 cut(s)	810, 981
MhlI	GDGCHC	1 cut(s)	1176
MmeI	TCCRAC	3 cut(s)	195, 466, 650
MroXI	GAANNNNTTC	1 cut(s)	497
MseI	TTAA	7 cut(s)	54, 63, 339, 404, 477, 914, 1010
MslI	CAYNNNNRTG	4 cut(s)	113, 677, 1142, 1259
MspI	CCGG	1 cut(s)	206
MspR9I	CCNGG	1 cut(s)	953
MunI	CAATTG	1 cut(s)	630
MvaI	CCWGG	1 cut(s)	953
MwoI	GCNNNNNNNGC	3 cut(s)	352, 1334, 1343
NdeI	CATATG	1 cut(s)	1132
NdeII	GATC	5 cut(s)	222, 511, 810, 981, 1020
NlaIII	CATG	7 cut(s)	85, 414, 530, 767, 1141, 1182, 1394
NlaIV	GGNNCC	3 cut(s)	189, 897, 1234
NmuCI	GTSAC	2 cut(s)	17, 586
NspI	RCATGY	1 cut(s)	767
OliI	CACNNNNGTG	1 cut(s)	113
PagI	TCATGA	1 cut(s)	526
PciI	ACATGT	1 cut(s)	763
PdmI	GAANNNNTTC	1 cut(s)	497
PfeI	GAWTC	4 cut(s)	254, 467, 523, 1310
PkrI	GCNGC	6 cut(s)	304, 637, 759, 1090, 1093, 1330
Ple19I	CGATCG	1 cut(s)	225
PscI	ACATGT	1 cut(s)	763
PsiI	TTATAA	2 cut(s)	372, 711
Psp6I	CCWGG	1 cut(s)	951
PspFI	CCCAGC	1 cut(s)	150
PspGI	CCWGG	1 cut(s)	951
PspN4I	GGNNCC	3 cut(s)	189, 897, 1234
PspPI	GGNCC	1 cut(s)	895
PsuI	RGATCY	2 cut(s)	810, 981
PvuI	CGATCG	1 cut(s)	225
RsaI	GTAC	2 cut(s)	329, 911
RsaNI	GTAC	2 cut(s)	328, 910
RseI	CAYNNNNRTG	4 cut(s)	113, 677, 1142, 1259
SaqAI	TTAA	7 cut(s)	54, 63, 339, 404, 477, 914, 1010
SatI	GCNGC	6 cut(s)	303, 636, 758, 1089, 1092, 1329
Sau3AI	GATC	5 cut(s)	222, 511, 810, 981, 1020
Sau96I	GGNCC	1 cut(s)	895
ScrFI	CCNGG	1 cut(s)	953
SduI	GDGCHC	1 cut(s)	1176
SfaNI	GCATC	4 cut(s)	333, 370, 1074, 1324
SinI	GGWCC	1 cut(s)	895
SmiMI	CAYNNNNRTG	4 cut(s)	113, 677, 1142, 1259
SpeI	ACTAGT	2 cut(s)	137, 548
SsiI	CCGC	2 cut(s)	183, 1328
SspMI	CTAG	2 cut(s)	138, 549
StyD4I	CCNGG	1 cut(s)	951
StyI	CCWWGG	1 cut(s)	111
TaaI	ACNGT	2 cut(s)	17, 653
TaiI	ACGT	2 cut(s)	129, 588
TaqI	TCGA	5 cut(s)	12, 45, 715, 902, 1195
TatI	WGTACW	1 cut(s)	909
TauI	GCSGC	1 cut(s)	1331
TfiI	GAWTC	4 cut(s)	254, 467, 523, 1310
Tru1I	TTAA	7 cut(s)	54, 63, 339, 404, 477, 914, 1010
Tru9I	TTAA	7 cut(s)	54, 63, 339, 404, 477, 914, 1010
TscAI	CASTG	4 cut(s)	76, 264, 354, 651
TseFI	GTSAC	2 cut(s)	17, 586
TseI	GCWGC	5 cut(s)	302, 635, 757, 1088, 1091
Tsp45I	GTSAC	2 cut(s)	17, 586
TspGWI	ACGGA	1 cut(s)	345
TspRI	CASTG	4 cut(s)	76, 264, 354, 651
VneI	GTGCAC	1 cut(s)	1172
VpaK11BI	GGWCC	1 cut(s)	895
XagI	CCTNNNNNAGG	1 cut(s)	950
XapI	RAATTY	5 cut(s)	461, 472, 497, 802, 1372
XceI	RCATGY	1 cut(s)	767
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1014
XmnI	GAANNNNTTC	1 cut(s)	497
XspI	CTAG	2 cut(s)	138, 549
ZraI	GACGTC	1 cut(s)	586

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