Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001225

Physical Location & Seq

Genomic Coordinates Forward (+)

40032197 .. 40060361

Gene Structure 28165 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG210700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGTCACGGCTACCTTAGGGCTTTCACTTTCCATGGGGTCAGTGGGAAAAACTGAGGCACAGTTGGAAGAGCACGACCCCGTGACCGGTACGTGGCGGTTCACGCATAGGGGAGAGTTCTCGGTGTTGAAGGGAGGACAGAAAGTCGGGAACACTAAGGTGATGAAAAACGTGGCGAATACTTATATGTTGAGCTGGGGTGGGAGGCTGATGTGCTTGTGGGAAGGTGGTGGGGAACCTTACCAAATTGAAAAGGAGACCTTGGAAACTGTGGGGAAGCCGGGAAGGTCAAGCTCATGGAAGGAGAAAGGTGAACGGCCTGCCCAGAAAGAGGAAAAGAAGACAATCAAATTTCTCCGATTGAAATTCTTATTAGGGGAGGTATGCTATTGGTGCTGTTATATGTGTAGCGGGAGATTCAGTGCAATGACTTCAGTTTGTGGAATCACTCCAGCGGTGACAGCATTATCTGTGAATCCTACCAAAGACACATCTCCAATATATTTGCTTCCTAGGTTTCCTAATGTTGTGAATTGTAGTCGAGATTGGAGAGTACCTATTGAAGCTCCTTCACGATTTTGGCTGCAACATGTAGGCAATGCCTATGATTATTTGGATGAAAATGGGAATTCAGAGATCCAGATACATGCTTCTGTTTGCTCTTACGAGTGGTTCACTTTGCAAAAGTTTGGATATGATTGGCAAAGTGGTAAACTCGACCCTTCGATTATGAACATGGATAGAAACCAAAGCAAAAAATTGCCTCACCTTGTTCAGAGAGAGACTGCAGCCATGTTCAGTGGACCGGGTGTGTCCCCAGCAAATCAAATTGGACAAGGTGCTAAGGTTCTGTATGTGGAGCAGATGTGCAGCTATTTTTAG

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

293

Amino Acids

32.9

Weight (kDa)

8.64

Isoelectric Point (pI)

33.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPE65	PF03055	50 - 94	1.5e-07	Retinal pigment epithelial membrane protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AciI	CCGC	3 cut(s)	97, 411, 455
AclWI	GGATC	1 cut(s)	631
AcsI	RAATTY	3 cut(s)	350, 365, 628
AcuI	CTGAAG	1 cut(s)	417
AfaI	GTAC	2 cut(s)	91, 555
AfiI	CCNNNNNNNGG	3 cut(s)	86, 93, 331
AflIII	ACRYGT	1 cut(s)	589
AgeI	ACCGGT	1 cut(s)	86
AgsI	TTSAA	4 cut(s)	130, 251, 364, 563
AhdI	GACNNNNNGTC	1 cut(s)	143
AleI	CACNNNNGTG	1 cut(s)	158
AluBI	AGCT	4 cut(s)	195, 294, 566, 873
AluI	AGCT	4 cut(s)	195, 294, 566, 873
Alw21I	GWGCWC	1 cut(s)	75
Alw26I	GTCTC	2 cut(s)	251, 776
AlwI	GGATC	1 cut(s)	631
AoxI	GGCC	1 cut(s)	317
ApeKI	GCWGC	3 cut(s)	583, 788, 870
ApoI	RAATTY	3 cut(s)	350, 365, 628
AsiGI	ACCGGT	1 cut(s)	86
AspA2I	CCTAGG	1 cut(s)	512
AspS9I	GGNCC	1 cut(s)	803
AsuC2I	CCSGG	2 cut(s)	282, 807
AsuHPI	GGTGA	4 cut(s)	172, 323, 469, 758
AvaII	GGWCC	1 cut(s)	803
AvrII	CCTAGG	1 cut(s)	512
AxyI	CCTNAGG	1 cut(s)	16
BbsI	GAAGAC	1 cut(s)	347
Bbv12I	GWGCWC	1 cut(s)	75
BbvI	GCAGC	2 cut(s)	570, 800
BceAI	ACGGC	2 cut(s)	24, 332
BcnI	CCSGG	2 cut(s)	282, 807
BcoDI	GTCTC	2 cut(s)	251, 776
BfaI	CTAG	1 cut(s)	513
BfmI	CTRYAG	1 cut(s)	786
BisI	GCNGC	3 cut(s)	584, 789, 871
BlnI	CCTAGG	1 cut(s)	512
BlsI	GCNGC	3 cut(s)	585, 790, 872
Bme1390I	CCNGG	2 cut(s)	282, 807
Bme18I	GGWCC	1 cut(s)	803
BmeRI	GACNNNNNGTC	1 cut(s)	143
BmgT120I	GGNCC	1 cut(s)	803
BmiI	GGNNCC	1 cut(s)	237
BmrFI	CCNGG	2 cut(s)	282, 807
BpiI	GAAGAC	1 cut(s)	347
BpmI	CTGGAG	1 cut(s)	435
Bpu10I	CCTNAGC	1 cut(s)	843
BpuMI	CCSGG	2 cut(s)	282, 807
BsaAI	YACGTR	1 cut(s)	93
BsaI	GGTCTC	1 cut(s)	251
BsaJI	CCNNGG	3 cut(s)	33, 261, 512
BsaWI	WCCGGW	1 cut(s)	86
BsaXI	ACNNNNNCTCC	4 cut(s)	406, 436, 851, 881
Bsc4I	CCNNNNNNNGG	3 cut(s)	86, 93, 331
Bse118I	RCCGGY	1 cut(s)	86
Bse21I	CCTNAGG	1 cut(s)	16
Bse3DI	GCAATG	2 cut(s)	432, 604
BseDI	CCNNGG	3 cut(s)	33, 261, 512
BseGI	GGATG	1 cut(s)	622
BseLI	CCNNNNNNNGG	3 cut(s)	86, 93, 331
BseMI	GCAATG	2 cut(s)	432, 604
BseMII	CTCAG	1 cut(s)	45
BseXI	GCAGC	2 cut(s)	570, 800
BseYI	CCCAGC	2 cut(s)	195, 817
BshFI	GGCC	1 cut(s)	319
BshTI	ACCGGT	1 cut(s)	86
BsiHKAI	GWGCWC	1 cut(s)	75
BsiSI	CCGG	3 cut(s)	87, 281, 806
BslFI	GGGAC	1 cut(s)	799
BslI	CCNNNNNNNGG	3 cut(s)	86, 93, 331
BsmAI	GTCTC	2 cut(s)	251, 776
BsmFI	GGGAC	1 cut(s)	799
BsnI	GGCC	1 cut(s)	319
Bso31I	GGTCTC	1 cut(s)	251
Bsp1286I	GDGCHC	1 cut(s)	75
Bsp143I	GATC	1 cut(s)	636
Bsp19I	CCATGG	1 cut(s)	33
BspACI	CCGC	3 cut(s)	97, 411, 455
BspANI	GGCC	1 cut(s)	319
BspCNI	CTCAG	1 cut(s)	46
BspLI	GGNNCC	1 cut(s)	237
BspMAI	CTGCAG	1 cut(s)	790
BspPI	GGATC	1 cut(s)	631
BspQI	GCTCTTC	1 cut(s)	63
BspTNI	GGTCTC	1 cut(s)	251
BsrDI	GCAATG	2 cut(s)	432, 604
BsrFI	RCCGGY	1 cut(s)	86
BssAI	RCCGGY	1 cut(s)	86
BssECI	CCNNGG	3 cut(s)	33, 261, 512
BssMI	GATC	1 cut(s)	636
BssT1I	CCWWGG	3 cut(s)	33, 261, 512
Bst4CI	ACNGT	2 cut(s)	63, 271
Bst6I	CTCTTC	1 cut(s)	63
BstBAI	YACGTR	1 cut(s)	93
BstC8I	GCNNGC	1 cut(s)	321
BstDEI	CTNAG	4 cut(s)	16, 54, 156, 843
BstDSI	CCRYGG	1 cut(s)	33
BstF5I	GGATG	1 cut(s)	622
BstKTI	GATC	1 cut(s)	639
BstMAI	GTCTC	2 cut(s)	251, 776
BstMBI	GATC	1 cut(s)	636
BstMWI	GCNNNNNNNGC	3 cut(s)	103, 393, 461
BstNSI	RCATGY	2 cut(s)	593, 650
BstSCI	CCNGG	2 cut(s)	280, 805
BstSFI	CTRYAG	1 cut(s)	786
BstV1I	GCAGC	2 cut(s)	570, 800
BstV2I	GAAGAC	1 cut(s)	347
BstX2I	RGATCY	1 cut(s)	636
BstYI	RGATCY	1 cut(s)	636
Bsu36I	CCTNAGG	1 cut(s)	16
BsuRI	GGCC	1 cut(s)	319
BtgI	CCRYGG	1 cut(s)	33
BtsCI	GGATG	1 cut(s)	622
BtsIMutI	CAGTG	3 cut(s)	48, 427, 805
Cac8I	GCNNGC	1 cut(s)	321
Cfr10I	RCCGGY	1 cut(s)	86
Cfr13I	GGNCC	1 cut(s)	803
Csp6I	GTAC	2 cut(s)	90, 554
CspAI	ACCGGT	1 cut(s)	86
CviAII	CATG	6 cut(s)	34, 297, 590, 647, 736, 793
CviQI	GTAC	2 cut(s)	90, 554
DdeI	CTNAG	4 cut(s)	16, 54, 156, 843
DpnI	GATC	1 cut(s)	638
DpnII	GATC	1 cut(s)	636
DriI	GACNNNNNGTC	1 cut(s)	143
Eam1104I	CTCTTC	1 cut(s)	63
Eam1105I	GACNNNNNGTC	1 cut(s)	143
EarI	CTCTTC	1 cut(s)	63
Eco130I	CCWWGG	3 cut(s)	33, 261, 512
Eco31I	GGTCTC	1 cut(s)	251
Eco47I	GGWCC	1 cut(s)	803
Eco57I	CTGAAG	1 cut(s)	417
Eco81I	CCTNAGG	1 cut(s)	16
EcoRI	GAATTC	1 cut(s)	628
EcoT14I	CCWWGG	3 cut(s)	33, 261, 512
ErhI	CCWWGG	3 cut(s)	33, 261, 512
FaeI	CATG	6 cut(s)	37, 300, 593, 650, 739, 796
FalI	AAGNNNNNCTT	2 cut(s)	245, 277
FaqI	GGGAC	1 cut(s)	799
FatI	CATG	6 cut(s)	33, 296, 589, 646, 735, 792
FauI	CCCGC	1 cut(s)	404
Fnu4HI	GCNGC	3 cut(s)	584, 789, 871
FokI	GGATG	1 cut(s)	629
Fsp4HI	GCNGC	3 cut(s)	584, 789, 871
FspBI	CTAG	1 cut(s)	513
GluI	GCNGC	3 cut(s)	584, 789, 871
GsaI	CCCAGC	2 cut(s)	199, 821
GsuI	CTGGAG	1 cut(s)	435
HaeIII	GGCC	1 cut(s)	319
HapII	CCGG	3 cut(s)	87, 281, 806
Hin1II	CATG	6 cut(s)	37, 300, 593, 650, 739, 796
HinfI	GANTC	3 cut(s)	417, 444, 475
HpaII	CCGG	3 cut(s)	87, 281, 806
HphI	GGTGA	4 cut(s)	172, 323, 469, 758
Hpy166II	GTNNAC	5 cut(s)	102, 314, 675, 713, 803
Hpy188I	TCNGA	3 cut(s)	359, 634, 777
Hpy188III	TCNNGA	4 cut(s)	148, 542, 573, 640
Hpy8I	GTNNAC	5 cut(s)	102, 314, 675, 713, 803
HpyAV	CCTTC	6 cut(s)	124, 218, 279, 295, 579, 732
HpyCH4III	ACNGT	2 cut(s)	63, 271
HpyCH4IV	ACGT	2 cut(s)	92, 171
HpyCH4V	TGCA	5 cut(s)	425, 586, 682, 788, 870
HpyF10VI	GCNNNNNNNGC	3 cut(s)	103, 393, 461
HpyF3I	CTNAG	4 cut(s)	16, 54, 156, 843
HpySE526I	ACGT	2 cut(s)	92, 171
Hsp92II	CATG	6 cut(s)	37, 300, 593, 650, 739, 796
Kzo9I	GATC	1 cut(s)	636
LguI	GCTCTTC	1 cut(s)	63
LmnI	GCTCC	2 cut(s)	571, 859
LpnPI	CCDG	9 cut(s)	100, 181, 294, 333, 338, 465, 653, 819, 831
Lsp1109I	GCAGC	2 cut(s)	570, 800
MaeI	CTAG	1 cut(s)	513
MaeII	ACGT	2 cut(s)	92, 171
MaeIII	GTNAC	3 cut(s)	4, 82, 457
MalI	GATC	1 cut(s)	638
MboI	GATC	1 cut(s)	636
MboII	GAAGA	2 cut(s)	80, 352
MflI	RGATCY	1 cut(s)	636
MhlI	GDGCHC	1 cut(s)	75
MluCI	AATT	7 cut(s)	246, 350, 365, 532, 628, 758, 828
MmeI	TCCRAC	1 cut(s)	45
MnlI	CCTC	6 cut(s)	49, 128, 198, 325, 373, 774
MslI	CAYNNNNRTG	1 cut(s)	158
MspA1I	CMGCKG	1 cut(s)	455
MspI	CCGG	3 cut(s)	87, 281, 806
MspR9I	CCNGG	2 cut(s)	282, 807
MwoI	GCNNNNNNNGC	3 cut(s)	103, 393, 461
NciI	CCSGG	2 cut(s)	282, 807
NcoI	CCATGG	1 cut(s)	33
NdeII	GATC	1 cut(s)	636
NlaIII	CATG	6 cut(s)	37, 300, 593, 650, 739, 796
NlaIV	GGNNCC	1 cut(s)	237
NmuCI	GTSAC	3 cut(s)	4, 82, 457
NspI	RCATGY	2 cut(s)	593, 650
OliI	CACNNNNGTG	1 cut(s)	158
PciI	ACATGT	1 cut(s)	589
PciSI	GCTCTTC	1 cut(s)	63
PfeI	GAWTC	3 cut(s)	417, 444, 475
PinAI	ACCGGT	1 cut(s)	86
PkrI	GCNGC	3 cut(s)	585, 790, 872
Ppu21I	YACGTR	1 cut(s)	93
PscI	ACATGT	1 cut(s)	589
PspFI	CCCAGC	2 cut(s)	195, 817
PspN4I	GGNNCC	1 cut(s)	237
PspPI	GGNCC	1 cut(s)	803
PstI	CTGCAG	1 cut(s)	790
PsuI	RGATCY	1 cut(s)	636
RsaI	GTAC	2 cut(s)	91, 555
RsaNI	GTAC	2 cut(s)	90, 554
RseI	CAYNNNNRTG	1 cut(s)	158
SapI	GCTCTTC	1 cut(s)	63
SatI	GCNGC	3 cut(s)	584, 789, 871
Sau3AI	GATC	1 cut(s)	636
Sau96I	GGNCC	1 cut(s)	803
ScrFI	CCNGG	2 cut(s)	282, 807
SduI	GDGCHC	1 cut(s)	75
SfcI	CTRYAG	1 cut(s)	786
SinI	GGWCC	1 cut(s)	803
SmiMI	CAYNNNNRTG	1 cut(s)	158
Sse9I	AATT	7 cut(s)	246, 350, 365, 532, 628, 758, 828
SsiI	CCGC	3 cut(s)	97, 411, 455
SspMI	CTAG	1 cut(s)	513
StyD4I	CCNGG	2 cut(s)	280, 805
StyI	CCWWGG	3 cut(s)	33, 261, 512
TaaI	ACNGT	2 cut(s)	63, 271
TaiI	ACGT	2 cut(s)	95, 174
TaqI	TCGA	3 cut(s)	541, 717, 725
TasI	AATT	7 cut(s)	246, 350, 365, 532, 628, 758, 828
TfiI	GAWTC	3 cut(s)	417, 444, 475
TscAI	CASTG	3 cut(s)	48, 427, 805
TseFI	GTSAC	3 cut(s)	4, 82, 457
TseI	GCWGC	3 cut(s)	583, 788, 870
Tsp45I	GTSAC	3 cut(s)	4, 82, 457
TspDTI	ATGAA	3 cut(s)	179, 633, 746
TspRI	CASTG	3 cut(s)	48, 427, 805
VpaK11BI	GGWCC	1 cut(s)	803
XapI	RAATTY	3 cut(s)	350, 365, 628
XceI	RCATGY	2 cut(s)	593, 650
XcmI	CCANNNNNNNNNTGG	1 cut(s)	40
XmaJI	CCTAGG	1 cut(s)	512
XspI	CTAG	1 cut(s)	513

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