Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00501

Orthogroup ID

OG0001225

Physical Location & Seq

Genomic Coordinates Reverse (-)

22988 .. 33752

Gene Structure 10765 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G011410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGCCAGCAAAGCGACTGTTAGCTCATTACAAGCTCGACACTCACAAAGATAGACTTCTCATGATGTCATGTAATACAGAAGATATACTGTTGCCACACAATACTTTTACATTTTATGAATTTGATTCAAATTTTAAGGAGGTGGGAAAGAAAGAGTTCATCATCCCAGATCACTTGTTGATTCATGATTGGGCTTTCACAACCAGTTATTATATACTATTTGCTAACCGAGTTAAACTTAATATTTCTGGTGCAATGACTTCAGTTTGTGGAATCACTCCAACGATGACAGCATTATCTGTGAATCCTACCAAGGACACATCTCCAATATATTTGCTTCCTAGGTTTCCTAATGATGTGAATTATAGTCGAGATTGGAGAGTACCTATTGAAGCTCCTTCACGATTTTGGCTGCAACATGTAGGCAATGCCTATGATTATTTGGATGAAAATGGGAATTCAGAGATTCAAATACATGCATCTGTCTGCTCTTACGAGTGGTTCACTTTGCAAAAGTTGTTTGGATATGATTGGCAAAGTGGTAAACTCGACCCTTCGGTTATGAACTTGGGTAGAAACCAAAGCAAAAAATTGCCTCACCTTGTTCAGGTTTCGATCAGCTTGGATGCCAATGGAATCTGTCAAAGATGTGATGTGGAGCCTATGAACGAGTGGAGCAAGTCATCAGATTTTCTTGTTATCAATCCAGCATTTTCAGGCCGCAAAAATAATTTTGTATATGCACCAACTACTTCAGGTTCTCGCAGTGAATTGCCAAACTTTCCATTTGACATGGTGGTGAAGCTCAATCTTTCAAGTAAATCTGTGCACACATGGTCTGCTGGTAGTAGAAGATTTTTCGGTGAACCCACTTTCGTTGCTAAAGGTTTTGAAGAAGATGAGGGTTACATTCTTGTAGTTGAGTATGCAGTTGCAGTTCAAAGGTGCTATTTGGTTATCTTGGATTCAAAAAAGATTGGAGCGGCTGACGCACTTGTGGCAAGACTTGAAGTCCCCAAGGACCTAAATTTTCCTTTTGGTTTTCATGGGTGCTGGGCCAACAATGAATAG

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

356

Amino Acids

40.55

Weight (kDa)

6.22

Isoelectric Point (pI)

41.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPE65	PF03055	4 - 353	9.8e-51	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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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)
AccBSI	CCGCTC	1 cut(s)	983
AciI	CCGC	2 cut(s)	721, 983
AcsI	RAATTY	4 cut(s)	119, 130, 457, 1027
AcuI	CTGAAG	2 cut(s)	246, 738
AfaI	GTAC	1 cut(s)	384
AfiI	CCNNNNNNNGG	1 cut(s)	607
AflIII	ACRYGT	1 cut(s)	418
AgsI	TTSAA	8 cut(s)	129, 392, 470, 816, 893, 941, 969, 1010
AhdI	GACNNNNNGTC	1 cut(s)	1010
AluBI	AGCT	5 cut(s)	23, 34, 395, 621, 805
AluI	AGCT	5 cut(s)	23, 34, 395, 621, 805
Alw21I	GWGCWC	1 cut(s)	831
Alw44I	GTGCAC	1 cut(s)	827
AoxI	GGCC	2 cut(s)	718, 1056
ApaLI	GTGCAC	1 cut(s)	827
ApeKI	GCWGC	1 cut(s)	412
ApoI	RAATTY	4 cut(s)	119, 130, 457, 1027
Asp700I	GAANNNNTTC	1 cut(s)	155
AspA2I	CCTAGG	1 cut(s)	341
AspS9I	GGNCC	2 cut(s)	1021, 1056
AsuHPI	GGTGA	3 cut(s)	590, 811, 875
AvaII	GGWCC	1 cut(s)	1021
AvrII	CCTAGG	1 cut(s)	341
BaeGI	GKGCMC	1 cut(s)	831
Bbv12I	GWGCWC	1 cut(s)	831
BbvI	GCAGC	1 cut(s)	399
BfaI	CTAG	1 cut(s)	342
BisI	GCNGC	3 cut(s)	413, 721, 984
BlnI	CCTAGG	1 cut(s)	341
BlsI	GCNGC	3 cut(s)	414, 722, 985
Bme18I	GGWCC	1 cut(s)	1021
BmeRI	GACNNNNNGTC	1 cut(s)	1010
BmgT120I	GGNCC	2 cut(s)	1021, 1056
BmiI	GGNNCC	1 cut(s)	660
BmsI	GCATC	2 cut(s)	488, 616
BsaJI	CCNNGG	3 cut(s)	312, 341, 1017
Bsc4I	CCNNNNNNNGG	1 cut(s)	607
Bse1I	ACTGG	1 cut(s)	204
Bse3DI	GCAATG	2 cut(s)	261, 433
BseDI	CCNNGG	3 cut(s)	312, 341, 1017
BseGI	GGATG	3 cut(s)	162, 451, 631
BseLI	CCNNNNNNNGG	1 cut(s)	607
BseMI	GCAATG	2 cut(s)	261, 433
BseNI	ACTGG	1 cut(s)	204
BseSI	GKGCMC	1 cut(s)	831
BseXI	GCAGC	1 cut(s)	399
BseYI	CCCAGC	1 cut(s)	1053
BshFI	GGCC	2 cut(s)	720, 1058
BsiHKAI	GWGCWC	1 cut(s)	831
BslFI	GGGAC	1 cut(s)	998
BslI	CCNNNNNNNGG	1 cut(s)	607
BsmFI	GGGAC	1 cut(s)	998
BsnI	GGCC	2 cut(s)	720, 1058
Bsp1286I	GDGCHC	1 cut(s)	831
Bsp143I	GATC	2 cut(s)	169, 615
BspACI	CCGC	2 cut(s)	721, 983
BspANI	GGCC	2 cut(s)	720, 1058
BspHI	TCATGA	2 cut(s)	60, 184
BspLI	GGNNCC	1 cut(s)	660
BsrBI	CCGCTC	1 cut(s)	983
BsrDI	GCAATG	2 cut(s)	261, 433
BsrI	ACTGG	1 cut(s)	204
BssECI	CCNNGG	3 cut(s)	312, 341, 1017
BssMI	GATC	2 cut(s)	169, 615
BssT1I	CCWWGG	3 cut(s)	312, 341, 1017
Bst4CI	ACNGT	2 cut(s)	18, 90
BstC8I	GCNNGC	1 cut(s)	6
BstENI	CCTNNNNNAGG	1 cut(s)	605
BstF5I	GGATG	3 cut(s)	162, 451, 631
BstKTI	GATC	2 cut(s)	172, 618
BstMBI	GATC	2 cut(s)	169, 615
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 989, 998
BstNSI	RCATGY	2 cut(s)	422, 479
BstSLI	GKGCMC	1 cut(s)	831
BstV1I	GCAGC	1 cut(s)	399
BsuRI	GGCC	2 cut(s)	720, 1058
BtsCI	GGATG	3 cut(s)	162, 451, 631
BtsI	GCAGTG	1 cut(s)	772
BtsIMutI	CAGTG	1 cut(s)	772
Cac8I	GCNNGC	1 cut(s)	6
CciI	TCATGA	2 cut(s)	60, 184
Cfr13I	GGNCC	2 cut(s)	1021, 1056
CseI	GACGC	1 cut(s)	998
Csp6I	GTAC	1 cut(s)	383
CspCI	CAANNNNNGTGG	2 cut(s)	859, 894
CviAII	CATG	8 cut(s)	61, 69, 185, 419, 476, 793, 834, 1046
CviQI	GTAC	1 cut(s)	383
DpnI	GATC	2 cut(s)	171, 617
DpnII	GATC	2 cut(s)	169, 615
DriI	GACNNNNNGTC	1 cut(s)	1010
Eam1105I	GACNNNNNGTC	1 cut(s)	1010
Eco130I	CCWWGG	3 cut(s)	312, 341, 1017
Eco47I	GGWCC	1 cut(s)	1021
Eco57I	CTGAAG	2 cut(s)	246, 738
EcoNI	CCTNNNNNAGG	1 cut(s)	605
EcoO109I	RGGNCCY	1 cut(s)	1021
EcoRI	GAATTC	1 cut(s)	457
EcoT14I	CCWWGG	3 cut(s)	312, 341, 1017
EcoT22I	ATGCAT	1 cut(s)	481
ErhI	CCWWGG	3 cut(s)	312, 341, 1017
FaeI	CATG	8 cut(s)	64, 72, 188, 422, 479, 796, 837, 1049
FalI	AAGNNNNNCTT	2 cut(s)	39, 71
FaqI	GGGAC	1 cut(s)	998
FatI	CATG	8 cut(s)	60, 68, 184, 418, 475, 792, 833, 1045
Fnu4HI	GCNGC	3 cut(s)	413, 721, 984
FokI	GGATG	3 cut(s)	149, 458, 638
Fsp4HI	GCNGC	3 cut(s)	413, 721, 984
FspBI	CTAG	1 cut(s)	342
GluI	GCNGC	3 cut(s)	413, 721, 984
GsaI	CCCAGC	1 cut(s)	1057
HaeIII	GGCC	2 cut(s)	720, 1058
HgaI	GACGC	1 cut(s)	998
Hin1II	CATG	8 cut(s)	64, 72, 188, 422, 479, 796, 837, 1049
HinfI	GANTC	7 cut(s)	125, 181, 273, 304, 466, 636, 965
HphI	GGTGA	3 cut(s)	590, 811, 875
Hpy166II	GTNNAC	4 cut(s)	504, 545, 829, 866
Hpy188I	TCNGA	2 cut(s)	463, 688
Hpy188III	TCNNGA	4 cut(s)	61, 185, 371, 402
Hpy8I	GTNNAC	4 cut(s)	504, 545, 829, 866
HpyAV	CCTTC	2 cut(s)	408, 564
HpyCH4III	ACNGT	2 cut(s)	18, 90
HpyCH4V	TGCA	8 cut(s)	254, 415, 479, 511, 743, 829, 929, 935
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 989, 998
Hsp92II	CATG	8 cut(s)	64, 72, 188, 422, 479, 796, 837, 1049
Kzo9I	GATC	2 cut(s)	169, 615
LmnI	GCTCC	4 cut(s)	400, 658, 675, 980
Lsp1109I	GCAGC	1 cut(s)	399
LweI	GCATC	2 cut(s)	488, 616
MaeI	CTAG	1 cut(s)	342
MaeIII	GTNAC	1 cut(s)	905
MalI	GATC	2 cut(s)	171, 617
MbiI	CCGCTC	1 cut(s)	983
MboI	GATC	2 cut(s)	169, 615
MboII	GAAGA	4 cut(s)	92, 864, 905, 908
MhlI	GDGCHC	1 cut(s)	831
MluCI	AATT	8 cut(s)	119, 130, 361, 457, 590, 730, 770, 1027
MmeI	TCCRAC	1 cut(s)	305
MnlI	CCTC	3 cut(s)	133, 606, 895
Mph1103I	ATGCAT	1 cut(s)	481
MroXI	GAANNNNTTC	1 cut(s)	155
MseI	TTAA	3 cut(s)	135, 234, 240
MslI	CAYNNNNRTG	1 cut(s)	797
MwoI	GCNNNNNNNGC	3 cut(s)	10, 989, 998
NdeII	GATC	2 cut(s)	169, 615
NlaIII	CATG	8 cut(s)	64, 72, 188, 422, 479, 796, 837, 1049
NlaIV	GGNNCC	1 cut(s)	660
NsiI	ATGCAT	1 cut(s)	481
NspI	RCATGY	2 cut(s)	422, 479
PagI	TCATGA	2 cut(s)	60, 184
PciI	ACATGT	1 cut(s)	418
PdmI	GAANNNNTTC	1 cut(s)	155
PfeI	GAWTC	7 cut(s)	125, 181, 273, 304, 466, 636, 965
PkrI	GCNGC	3 cut(s)	414, 722, 985
PpuMI	RGGWCCY	1 cut(s)	1021
PscI	ACATGT	1 cut(s)	418
Psp5II	RGGWCCY	1 cut(s)	1021
PspFI	CCCAGC	1 cut(s)	1053
PspN4I	GGNNCC	1 cut(s)	660
PspPI	GGNCC	2 cut(s)	1021, 1056
PspPPI	RGGWCCY	1 cut(s)	1021
RsaI	GTAC	1 cut(s)	384
RsaNI	GTAC	1 cut(s)	383
RseI	CAYNNNNRTG	1 cut(s)	797
SaqAI	TTAA	3 cut(s)	135, 234, 240
SatI	GCNGC	3 cut(s)	413, 721, 984
Sau3AI	GATC	2 cut(s)	169, 615
Sau96I	GGNCC	2 cut(s)	1021, 1056
SduI	GDGCHC	1 cut(s)	831
SfaNI	GCATC	2 cut(s)	488, 616
SinI	GGWCC	1 cut(s)	1021
SmiMI	CAYNNNNRTG	1 cut(s)	797
Sse9I	AATT	8 cut(s)	119, 130, 361, 457, 590, 730, 770, 1027
SsiI	CCGC	2 cut(s)	721, 983
SspI	AATATT	1 cut(s)	244
SspMI	CTAG	1 cut(s)	342
StyI	CCWWGG	3 cut(s)	312, 341, 1017
TaaI	ACNGT	2 cut(s)	18, 90
TaqI	TCGA	4 cut(s)	36, 370, 549, 614
TasI	AATT	8 cut(s)	119, 130, 361, 457, 590, 730, 770, 1027
TauI	GCSGC	2 cut(s)	723, 986
TfiI	GAWTC	7 cut(s)	125, 181, 273, 304, 466, 636, 965
Tru1I	TTAA	3 cut(s)	135, 234, 240
Tru9I	TTAA	3 cut(s)	135, 234, 240
TscAI	CASTG	1 cut(s)	772
TseI	GCWGC	1 cut(s)	412
TspDTI	ATGAA	7 cut(s)	132, 148, 173, 462, 578, 680, 1034
TspRI	CASTG	1 cut(s)	772
VneI	GTGCAC	1 cut(s)	827
VpaK11BI	GGWCC	1 cut(s)	1021
XagI	CCTNNNNNAGG	1 cut(s)	605
XapI	RAATTY	4 cut(s)	119, 130, 457, 1027
XceI	RCATGY	2 cut(s)	422, 479
XmaJI	CCTAGG	1 cut(s)	341
XmnI	GAANNNNTTC	1 cut(s)	155
XspI	CTAG	1 cut(s)	342
Zsp2I	ATGCAT	1 cut(s)	481

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