Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0002862

Physical Location & Seq

Genomic Coordinates Reverse (-)

64229988 .. 64232857

Gene Structure 2870 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG459300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGCTCCATGCTCTATACTTCAAGAAAGACGATGACTGTGGAAGTTGGATCATCTCATATAAGAATAGATATGTTGAGAGTGAGACATTTAAGATAGAAACTCAACGAAATAAACCAGGTTTCTTACCGGCCCTTGCAGGAGACGCTCCAGCAATTATAGCAGCATTTCTTTTAAATTCGTTGAGATTTGGGACAGTCATCAAACACATGAGCAACACCAATGTTTTCGAGCATTCAGGGAAAATTTACTCAATTGCAGAGAACTATCTACCTCAAGAGGTGGACATTTCAACCTTGGAAACCATTTGTGATTGGGATGTCAATGGAACTTGGGATCGACCTTTCACAAGTCATCCAAAGAAAGCTCCAAACGGAGAGTTAGTCGTGATGGGGACAGATGCATGGAAACCTTACTATGTTTTAGGGGTCATCTCTGCTGATGGAAAGAAAGTGCACAAGGTTGATCTCAAATTTAAAAGATGTGTGTTCAGTCATGATATAGGAGTCACGCAAAACTACAATGTAATCCTTGATCATCCCCTCACATTGGATGTAAAGAGACTCACCATGGGAGGCCAAATAATGCAGTATGAAAAGGAAGAGTACGCTAGAATTGGGGTCATGCCTCGTTATGGAGATGCAGAGTCTGTCAAATGGTTTGAGGTACAGACCAATTGCACACTTCACTTTCTCAATTGCTTTGAGAATGCTAATCAGGAGGGAAGGGGCATCGAGGAAGATGATGGCTGGATTATCACTTTTGTCCACAATGAAGAAACTGATGTGACCCAAGTTCATATCATTGATGCACAGGATTTTGAAGGTGAAGCGATTGCGAAACTTACATTGCCACAACGGGTGCCCTATGGTTTTCATTCAACCTTTCTGTCAATGCCAGCTTGTCAATCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RPE65

Protein Analysis

303

Amino Acids

34.47

Weight (kDa)

5.37

Isoelectric Point (pI)

32.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPE65	PF03055	1 - 238	8.1e-52	Retinal pigment epithelial membrane protein
RPE65	PF03055	243 - 296	2.1e-16	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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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0002862)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g35571 FvH4_2g35680 FvH4_2g35681 FvH4_2g35682 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520 FvH4_5g00520
malus_domestica	MD15G1094300.v1.1
prunus_persica	Prupe.1G449200_v2.0.a1 Prupe.1G449300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0306121
rosa_laevigata	RLG00000010823 RLG00000016512
rosa_multiflora	Rmu_sc0000785.1_g000018 Rmu_sc0000785.1_g000021 Rmu_sc0003594.1_g000022
rosa_roxburghii	Rroxscaffold_7G00162040 Rroxscaffold_7G00177250
rosa_rugosa	Rorug06G0282200 Rorug06G0346800 Rorug06G0346800
rosa_samantha	Rh6AG459300 Rh6AG459400 Rh6BG441600 Rh6CG473800 Rh6DG460000
rosa_wichuraiana	Rw6G040040 Rw7G016580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	859
AclWI	GGATC	2 cut(s)	56, 342
AcsI	RAATTY	3 cut(s)	175, 243, 470
AfaI	GTAC	2 cut(s)	605, 666
AfiI	CCNNNNNNNGG	2 cut(s)	547, 632
AgsI	TTSAA	4 cut(s)	22, 291, 821, 879
AjnI	CCWGG	1 cut(s)	115
AluBI	AGCT	2 cut(s)	365, 899
AluI	AGCT	2 cut(s)	365, 899
Alw21I	GWGCWC	1 cut(s)	456
Alw26I	GTCTC	3 cut(s)	77, 135, 553
Alw44I	GTGCAC	1 cut(s)	452
AlwI	GGATC	2 cut(s)	56, 342
AlwNI	CAGNNNCTG	1 cut(s)	647
AoxI	GGCC	2 cut(s)	129, 574
ApaLI	GTGCAC	1 cut(s)	452
ApeKI	GCWGC	1 cut(s)	161
ApoI	RAATTY	3 cut(s)	175, 243, 470
AspS9I	GGNCC	1 cut(s)	130
AsuHPI	GGTGA	2 cut(s)	556, 836
BaeGI	GKGCMC	2 cut(s)	456, 864
BanI	GGYRCC	1 cut(s)	859
Bbv12I	GWGCWC	1 cut(s)	456
BbvI	GCAGC	1 cut(s)	173
BccI	CCATC	3 cut(s)	382, 434, 737
BciT130I	CCWGG	1 cut(s)	117
BclI	TGATCA	1 cut(s)	532
BcoDI	GTCTC	3 cut(s)	77, 135, 553
BfaI	CTAG	1 cut(s)	609
BisI	GCNGC	1 cut(s)	162
BlsI	GCNGC	1 cut(s)	163
Bme1390I	CCNGG	1 cut(s)	117
BmgT120I	GGNCC	1 cut(s)	130
BmiI	GGNNCC	1 cut(s)	861
BmrFI	CCNGG	1 cut(s)	117
BmsI	GCATC	4 cut(s)	388, 628, 738, 796
BpmI	CTGGAG	1 cut(s)	132
BpuEI	CTTGAG	1 cut(s)	258
BsaJI	CCNNGG	2 cut(s)	294, 567
BsaXI	ACNNNNNCTCC	2 cut(s)	366, 396
Bsc4I	CCNNNNNNNGG	2 cut(s)	547, 632
Bse118I	RCCGGY	1 cut(s)	127
Bse3DI	GCAATG	1 cut(s)	845
BseBI	CCWGG	1 cut(s)	117
BseDI	CCNNGG	2 cut(s)	294, 567
BseGI	GGATG	4 cut(s)	322, 352, 535, 556
BseLI	CCNNNNNNNGG	2 cut(s)	547, 632
BseMI	GCAATG	1 cut(s)	845
BseSI	GKGCMC	2 cut(s)	456, 864
BseXI	GCAGC	1 cut(s)	173
BshFI	GGCC	2 cut(s)	131, 576
BshNI	GGYRCC	1 cut(s)	859
BsiHKAI	GWGCWC	1 cut(s)	456
BsiSI	CCGG	1 cut(s)	128
BslFI	GGGAC	2 cut(s)	205, 406
BslI	CCNNNNNNNGG	2 cut(s)	547, 632
BsmAI	GTCTC	3 cut(s)	77, 135, 553
BsmBI	CGTCTC	1 cut(s)	135
BsmFI	GGGAC	2 cut(s)	205, 406
BsmI	GAATGC	2 cut(s)	232, 712
BsnI	GGCC	2 cut(s)	131, 576
Bsp1286I	GDGCHC	2 cut(s)	456, 864
Bsp143I	GATC	4 cut(s)	48, 334, 463, 532
Bsp19I	CCATGG	1 cut(s)	567
BspANI	GGCC	2 cut(s)	131, 576
BspHI	TCATGA	1 cut(s)	493
BspLI	GGNNCC	1 cut(s)	861
BspPI	GGATC	2 cut(s)	56, 342
BspT107I	GGYRCC	1 cut(s)	859
BsrDI	GCAATG	1 cut(s)	845
BsrFI	RCCGGY	1 cut(s)	127
BssAI	RCCGGY	1 cut(s)	127
BssECI	CCNNGG	2 cut(s)	294, 567
BssMI	GATC	4 cut(s)	48, 334, 463, 532
BssT1I	CCWWGG	2 cut(s)	294, 567
Bst2UI	CCWGG	1 cut(s)	117
Bst4CI	ACNGT	2 cut(s)	38, 196
Bst6I	CTCTTC	1 cut(s)	594
BstC8I	GCNNGC	1 cut(s)	897
BstDEI	CTNAG	1 cut(s)	909
BstDSI	CCRYGG	1 cut(s)	567
BstF5I	GGATG	4 cut(s)	322, 352, 535, 556
BstKTI	GATC	4 cut(s)	51, 337, 466, 535
BstMAI	GTCTC	3 cut(s)	77, 135, 553
BstMBI	GATC	4 cut(s)	48, 334, 463, 532
BstMWI	GCNNNNNNNGC	2 cut(s)	143, 158
BstNI	CCWGG	1 cut(s)	117
BstSCI	CCNGG	1 cut(s)	115
BstSLI	GKGCMC	2 cut(s)	456, 864
BstV1I	GCAGC	1 cut(s)	173
BsuRI	GGCC	2 cut(s)	131, 576
BtgI	CCRYGG	1 cut(s)	567
BtsCI	GGATG	4 cut(s)	322, 352, 535, 556
Cac8I	GCNNGC	1 cut(s)	897
CaiI	CAGNNNCTG	1 cut(s)	647
CciI	TCATGA	1 cut(s)	493
Cfr10I	RCCGGY	1 cut(s)	127
Cfr13I	GGNCC	1 cut(s)	130
CseI	GACGC	1 cut(s)	152
CsiI	ACCWGGT	1 cut(s)	115
Csp6I	GTAC	2 cut(s)	604, 665
CviAII	CATG	6 cut(s)	8, 208, 402, 494, 568, 622
CviJI	RGCY	5 cut(s)	131, 365, 576, 747, 899
CviKI_1	RGCY	5 cut(s)	131, 365, 576, 747, 899
CviQI	GTAC	2 cut(s)	604, 665
DdeI	CTNAG	1 cut(s)	909
DpnI	GATC	4 cut(s)	50, 336, 465, 534
DpnII	GATC	4 cut(s)	48, 334, 463, 532
DraI	TTTAAA	2 cut(s)	174, 475
Eam1104I	CTCTTC	1 cut(s)	594
EarI	CTCTTC	1 cut(s)	594
Eco130I	CCWWGG	2 cut(s)	294, 567
EcoRII	CCWGG	1 cut(s)	115
EcoT14I	CCWWGG	2 cut(s)	294, 567
EcoT22I	ATGCAT	1 cut(s)	403
ErhI	CCWWGG	2 cut(s)	294, 567
Esp3I	CGTCTC	1 cut(s)	135
FaeI	CATG	6 cut(s)	11, 211, 405, 497, 571, 625
FaqI	GGGAC	2 cut(s)	205, 406
FatI	CATG	6 cut(s)	7, 207, 401, 493, 567, 621
FbaI	TGATCA	1 cut(s)	532
Fnu4HI	GCNGC	1 cut(s)	162
FokI	GGATG	4 cut(s)	329, 339, 522, 563
Fsp4HI	GCNGC	1 cut(s)	162
FspBI	CTAG	1 cut(s)	609
GluI	GCNGC	1 cut(s)	162
GsuI	CTGGAG	1 cut(s)	132
HaeIII	GGCC	2 cut(s)	131, 576
HapII	CCGG	1 cut(s)	128
HgaI	GACGC	1 cut(s)	152
Hin1II	CATG	6 cut(s)	11, 211, 405, 497, 571, 625
HinfI	GANTC	3 cut(s)	504, 561, 644
HpaII	CCGG	1 cut(s)	128
HphI	GGTGA	2 cut(s)	556, 836
Hpy166II	GTNNAC	3 cut(s)	283, 454, 766
Hpy188III	TCNNGA	5 cut(s)	22, 275, 385, 494, 716
Hpy8I	GTNNAC	3 cut(s)	283, 454, 766
HpyAV	CCTTC	2 cut(s)	717, 815
HpyCH4III	ACNGT	2 cut(s)	38, 196
HpyCH4V	TGCA	8 cut(s)	137, 257, 401, 454, 586, 641, 678, 809
HpyF10VI	GCNNNNNNNGC	2 cut(s)	143, 158
HpyF3I	CTNAG	1 cut(s)	909
Hsp92II	CATG	6 cut(s)	11, 211, 405, 497, 571, 625
Ksp22I	TGATCA	1 cut(s)	532
Kzo9I	GATC	4 cut(s)	48, 334, 463, 532
LmnI	GCTCC	3 cut(s)	9, 151, 370
LpnPI	CCDG	9 cut(s)	102, 123, 129, 141, 162, 222, 701, 733, 797
Lsp1109I	GCAGC	1 cut(s)	173
LweI	GCATC	4 cut(s)	388, 628, 738, 796
MabI	ACCWGGT	1 cut(s)	115
MaeI	CTAG	1 cut(s)	609
MaeIII	GTNAC	2 cut(s)	505, 784
MalI	GATC	4 cut(s)	50, 336, 465, 534
MboI	GATC	4 cut(s)	48, 334, 463, 532
MboII	GAAGA	3 cut(s)	611, 749, 785
MfeI	CAATTG	3 cut(s)	252, 673, 694
MhlI	GDGCHC	2 cut(s)	456, 864
MluCI	AATT	8 cut(s)	153, 175, 243, 252, 470, 612, 673, 694
MlyI	GAGTC	3 cut(s)	513, 555, 653
MmeI	TCCRAC	1 cut(s)	26
MnlI	CCTC	8 cut(s)	271, 282, 551, 566, 636, 655, 712, 727
Mph1103I	ATGCAT	1 cut(s)	403
MseI	TTAA	3 cut(s)	90, 173, 474
MspI	CCGG	1 cut(s)	128
MspR9I	CCNGG	1 cut(s)	117
MunI	CAATTG	3 cut(s)	252, 673, 694
Mva1269I	GAATGC	2 cut(s)	232, 712
MvaI	CCWGG	1 cut(s)	117
MwoI	GCNNNNNNNGC	2 cut(s)	143, 158
NcoI	CCATGG	1 cut(s)	567
NdeII	GATC	4 cut(s)	48, 334, 463, 532
NlaIII	CATG	6 cut(s)	11, 211, 405, 497, 571, 625
NlaIV	GGNNCC	1 cut(s)	861
NmuCI	GTSAC	2 cut(s)	505, 784
NsiI	ATGCAT	1 cut(s)	403
PagI	TCATGA	1 cut(s)	493
PctI	GAATGC	2 cut(s)	232, 712
PkrI	GCNGC	1 cut(s)	163
PleI	GAGTC	3 cut(s)	512, 555, 652
PpsI	GAGTC	3 cut(s)	512, 555, 652
Psp6I	CCWGG	1 cut(s)	115
PspGI	CCWGG	1 cut(s)	115
PspN4I	GGNNCC	1 cut(s)	861
PspPI	GGNCC	1 cut(s)	130
PstNI	CAGNNNCTG	1 cut(s)	647
RsaI	GTAC	2 cut(s)	605, 666
RsaNI	GTAC	2 cut(s)	604, 665
SaqAI	TTAA	3 cut(s)	90, 173, 474
SatI	GCNGC	1 cut(s)	162
Sau3AI	GATC	4 cut(s)	48, 334, 463, 532
Sau96I	GGNCC	1 cut(s)	130
SchI	GAGTC	3 cut(s)	513, 555, 653
ScrFI	CCNGG	1 cut(s)	117
SduI	GDGCHC	2 cut(s)	456, 864
SexAI	ACCWGGT	1 cut(s)	115
SfaNI	GCATC	4 cut(s)	388, 628, 738, 796
SmlI	CTYRAG	1 cut(s)	273
SmoI	CTYRAG	1 cut(s)	273
Sse9I	AATT	8 cut(s)	153, 175, 243, 252, 470, 612, 673, 694
SspMI	CTAG	1 cut(s)	609
StyD4I	CCNGG	1 cut(s)	115
StyI	CCWWGG	2 cut(s)	294, 567
TaaI	ACNGT	2 cut(s)	38, 196
TaqI	TCGA	3 cut(s)	228, 337, 732
TasI	AATT	8 cut(s)	153, 175, 243, 252, 470, 612, 673, 694
Tru1I	TTAA	3 cut(s)	90, 173, 474
Tru9I	TTAA	3 cut(s)	90, 173, 474
TseFI	GTSAC	2 cut(s)	505, 784
TseI	GCWGC	1 cut(s)	161
Tsp45I	GTSAC	2 cut(s)	505, 784
TspDTI	ATGAA	4 cut(s)	606, 785, 786, 863
TspGWI	ACGGA	1 cut(s)	387
VneI	GTGCAC	1 cut(s)	452
XapI	RAATTY	3 cut(s)	175, 243, 470
XspI	CTAG	1 cut(s)	609
Zsp2I	ATGCAT	1 cut(s)	403

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