Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0012440

Physical Location & Seq

Genomic Coordinates Forward (+)

51100008 .. 51101403

Gene Structure 1396 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG289900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 684 bp

ATGTCCATTTCTCGCTGGCCGAAGCATATTATTGGAAGGCAAATTCAGAAAGAGCAAAAAAAAGCTGCACACTTGCACGTGACTGCGCACCGCGGGACCTTCCAAAGTCTTCATCGCAAAAGACCCAGAGAGACAGGGCGCCACCCCATTTTTCCAAGTCGATCCCAACGCCCAGTCCAGACGACGCCGTTTACTCCCCAGACAATGCAGAATCAGGAAGGGCTTCAAGTGCAAGTGGATGGGGAAGTGGAGTCTGGGCCGGCCCCCTCGGTTGCAACACCTGGCTTTGATGAGTGGGCAAGCTTTGGGGACCAGGATATCATGCAGCAGCACTCTGCCATTCGCGCCGAGGAGGCCGAGAAAATTCCCTTCCTGGGGGACAAGGAACCACTCTCGTCGCTGGCAGCTGAGTATCAATCAGGCAGCGCTATTTTGTTGGAGAAAATAAAGGTTCTTGGTGAACAATATGCTGCCATTAGGAGAACCCGGGGCGACGGGAACTGCTTCTTCCGAAGCTTTATGTTTTCATACCTGGAGCATATTTTGGAATCACAAGATGTAAGTGAAGTTGATCGTATCAAGGCTAATGTTGAACAATGTAGAAAAACACTTCAGAGCTTGGGTTATGCAGACTTTACCTTTGAGGACTTCTTTTCAGTAATTATCTTCACTCATACACTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004843 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006464 GO:0006508 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0008234 GO:0009987 GO:0016579 GO:0016787 GO:0019538 GO:0019783 GO:0019784 GO:0032182 GO:0036211 GO:0036459 GO:0043130 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0070011 GO:0070646 GO:0070647 GO:0071108 GO:0071704 GO:0101005 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Peptidase_C65

Protein Analysis

227

Amino Acids

25.82

Weight (kDa)

6.76

Isoelectric Point (pI)

53.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Peptidase_C65	PF10275	118 - 221	6.5e-33	Peptidase C65 Otubain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012440)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28120
fragaria_vesca	FvH4_4g22670 FvH4_4g22670
malus_domestica	MD00G1177400.v1.1 MD13G1130400.v1.1
prunus_persica	Prupe.1G215300_v2.0.a1
pyrus_communis	pycom13g11370
rosa_chinensis	RchiOBHm_Chr4g0428911 RchiOBHm_Chr7g0205601
rosa_laevigata	RLG00000007115
rosa_multiflora	Rmu_sc0008612.1_g000010 Rmu_sc0015419.1_g000004 Rmu_sc0019159.1_g000001
rosa_roxburghii	Rroxscaffold_5G00370580
rosa_rugosa	Rorug04G0230400
rosa_samantha	Rh4BG292700 Rh4CG308800 Rh4DG289900
rosa_wichuraiana	Rw4G024880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	87
AccB1I	GGYRCC	1 cut(s)	138
AccII	CGCG	2 cut(s)	93, 345
AciI	CCGC	2 cut(s)	91, 93
AclWI	GGATC	1 cut(s)	156
AcoI	YGGCCR	1 cut(s)	17
AcsI	RAATTY	2 cut(s)	42, 363
AcuI	CTGAAG	1 cut(s)	596
AcvI	CACGTG	1 cut(s)	79
AcyI	GRCGYC	2 cut(s)	139, 185
AfeI	AGCGCT	1 cut(s)	427
AfiI	CCNNNNNNNGG	2 cut(s)	374, 375
AgsI	TTSAA	2 cut(s)	227, 593
AjnI	CCWGG	4 cut(s)	280, 312, 372, 531
AluBI	AGCT	5 cut(s)	65, 303, 407, 516, 618
AluI	AGCT	5 cut(s)	65, 303, 407, 516, 618
Alw26I	GTCTC	1 cut(s)	125
AlwI	GGATC	1 cut(s)	156
Ama87I	CYCGRG	1 cut(s)	486
Aor51HI	AGCGCT	1 cut(s)	427
AoxI	GGCC	4 cut(s)	17, 257, 261, 354
ApeKI	GCWGC	6 cut(s)	65, 325, 328, 404, 423, 470
ApoI	RAATTY	2 cut(s)	42, 363
ArsI	GACNNNNNNTTYG	2 cut(s)	623, 655
Asp700I	GAANNNNTTC	2 cut(s)	222, 503
AspLEI	GCGC	4 cut(s)	88, 141, 347, 428
AspS9I	GGNCC	4 cut(s)	96, 257, 262, 310
AsuC2I	CCSGG	2 cut(s)	487, 488
AsuHPI	GGTGA	1 cut(s)	470
AvaI	CYCGRG	1 cut(s)	486
AvaII	GGWCC	2 cut(s)	96, 310
BanI	GGYRCC	1 cut(s)	138
BbrPI	CACGTG	1 cut(s)	79
BbsI	GAAGAC	1 cut(s)	101
BbvI	GCAGC	6 cut(s)	52, 337, 340, 416, 435, 457
BccI	CCATC	1 cut(s)	233
BceAI	ACGGC	1 cut(s)	172
BciT130I	CCWGG	4 cut(s)	282, 314, 374, 533
BcnI	CCSGG	2 cut(s)	487, 488
BcoDI	GTCTC	1 cut(s)	125
BfoI	RGCGCY	2 cut(s)	142, 429
BglI	GCCNNNNNGGC	1 cut(s)	353
BisI	GCNGC	6 cut(s)	66, 326, 329, 405, 424, 471
BlsI	GCNGC	6 cut(s)	67, 327, 330, 406, 425, 472
Bme1390I	CCNGG	6 cut(s)	282, 314, 374, 487, 488, 533
Bme18I	GGWCC	2 cut(s)	96, 310
BmeT110I	CYCGRG	1 cut(s)	486
BmgT120I	GGNCC	4 cut(s)	96, 257, 262, 310
BmiI	GGNNCC	5 cut(s)	97, 140, 264, 311, 387
BmrFI	CCNGG	6 cut(s)	282, 314, 374, 487, 488, 533
BmrI	ACTGGG	1 cut(s)	167
BmuI	ACTGGG	1 cut(s)	167
BpiI	GAAGAC	1 cut(s)	101
BpmI	CTGGAG	1 cut(s)	554
BpuMI	CCSGG	2 cut(s)	487, 488
BsaAI	YACGTR	1 cut(s)	79
BsaHI	GRCGYC	2 cut(s)	139, 185
BsaJI	CCNNGG	6 cut(s)	91, 267, 348, 373, 486, 487
Bsc4I	CCNNNNNNNGG	2 cut(s)	374, 375
Bse118I	RCCGGY	1 cut(s)	259
Bse1I	ACTGG	1 cut(s)	173
BseBI	CCWGG	4 cut(s)	282, 314, 374, 533
BseDI	CCNNGG	6 cut(s)	91, 267, 348, 373, 486, 487
BseGI	GGATG	1 cut(s)	244
BseLI	CCNNNNNNNGG	2 cut(s)	374, 375
BseMII	CTCAG	1 cut(s)	399
BseNI	ACTGG	1 cut(s)	173
BseRI	GAGGAG	1 cut(s)	365
BseXI	GCAGC	6 cut(s)	52, 337, 340, 416, 435, 457
BsgI	GTGCAG	1 cut(s)	51
Bsh1236I	CGCG	2 cut(s)	93, 345
BshFI	GGCC	4 cut(s)	19, 259, 263, 356
BshNI	GGYRCC	1 cut(s)	138
BsiHKCI	CYCGRG	1 cut(s)	486
BsiSI	CCGG	2 cut(s)	260, 487
BslFI	GGGAC	3 cut(s)	109, 323, 392
BslI	CCNNNNNNNGG	2 cut(s)	374, 375
BsmAI	GTCTC	1 cut(s)	125
BsmFI	GGGAC	3 cut(s)	109, 323, 392
BsnI	GGCC	4 cut(s)	19, 259, 263, 356
BsoBI	CYCGRG	1 cut(s)	486
Bsp143I	GATC	2 cut(s)	161, 571
BspACI	CCGC	2 cut(s)	91, 93
BspANI	GGCC	4 cut(s)	19, 259, 263, 356
BspCNI	CTCAG	1 cut(s)	400
BspFNI	CGCG	2 cut(s)	93, 345
BspLI	GGNNCC	5 cut(s)	97, 140, 264, 311, 387
BspPI	GGATC	1 cut(s)	156
BspT107I	GGYRCC	1 cut(s)	138
BsrFI	RCCGGY	1 cut(s)	259
BsrI	ACTGG	1 cut(s)	173
BssAI	RCCGGY	1 cut(s)	259
BssECI	CCNNGG	6 cut(s)	91, 267, 348, 373, 486, 487
BssMI	GATC	2 cut(s)	161, 571
BssNI	GRCGYC	2 cut(s)	139, 185
Bst2UI	CCWGG	4 cut(s)	282, 314, 374, 533
BstACI	GRCGYC	2 cut(s)	139, 185
BstBAI	YACGTR	1 cut(s)	79
BstC8I	GCNNGC	4 cut(s)	17, 261, 301, 402
BstDEI	CTNAG	1 cut(s)	408
BstDSI	CCRYGG	1 cut(s)	91
BstF5I	GGATG	1 cut(s)	244
BstFNI	CGCG	2 cut(s)	93, 345
BstH2I	RGCGCY	2 cut(s)	142, 429
BstHHI	GCGC	4 cut(s)	88, 141, 347, 428
BstKTI	GATC	2 cut(s)	164, 574
BstMAI	GTCTC	1 cut(s)	125
BstMBI	GATC	2 cut(s)	161, 571
BstMWI	GCNNNNNNNGC	3 cut(s)	229, 344, 353
BstNI	CCWGG	4 cut(s)	282, 314, 374, 533
BstSCI	CCNGG	6 cut(s)	280, 312, 372, 485, 486, 531
BstUI	CGCG	2 cut(s)	93, 345
BstV1I	GCAGC	6 cut(s)	52, 337, 340, 416, 435, 457
BstV2I	GAAGAC	1 cut(s)	101
BsuRI	GGCC	4 cut(s)	19, 259, 263, 356
BtgI	CCRYGG	1 cut(s)	91
BtgZI	GCGATG	1 cut(s)	98
BtsCI	GGATG	1 cut(s)	244
Cac8I	GCNNGC	4 cut(s)	17, 261, 301, 402
CfoI	GCGC	4 cut(s)	88, 141, 347, 428
Cfr10I	RCCGGY	1 cut(s)	259
Cfr13I	GGNCC	4 cut(s)	96, 257, 262, 310
Cfr42I	CCGCGG	1 cut(s)	94
Cfr9I	CCCGGG	1 cut(s)	486
CseI	GACGC	1 cut(s)	193
CviAII	CATG	1 cut(s)	322
DdeI	CTNAG	1 cut(s)	408
DinI	GGCGCC	1 cut(s)	140
DpnI	GATC	2 cut(s)	163, 573
DpnII	GATC	2 cut(s)	161, 571
EaeI	YGGCCR	1 cut(s)	17
Eco32I	GATATC	1 cut(s)	319
Eco47I	GGWCC	2 cut(s)	96, 310
Eco47III	AGCGCT	1 cut(s)	427
Eco57I	CTGAAG	1 cut(s)	596
Eco72I	CACGTG	1 cut(s)	79
Eco88I	CYCGRG	1 cut(s)	486
EcoO109I	RGGNCCY	1 cut(s)	96
EcoRII	CCWGG	4 cut(s)	280, 312, 372, 531
EcoRV	GATATC	1 cut(s)	319
EgeI	GGCGCC	1 cut(s)	140
EheI	GGCGCC	1 cut(s)	140
FaeI	CATG	1 cut(s)	325
FaiI	YATR	8 cut(s)	27, 323, 468, 521, 529, 540, 627, 675
FaqI	GGGAC	3 cut(s)	109, 323, 392
FatI	CATG	1 cut(s)	321
FauI	CCCGC	1 cut(s)	86
Fnu4HI	GCNGC	6 cut(s)	66, 326, 329, 405, 424, 471
FokI	GGATG	1 cut(s)	251
FseI	GGCCGGCC	1 cut(s)	263
Fsp4HI	GCNGC	6 cut(s)	66, 326, 329, 405, 424, 471
FspI	TGCGCA	1 cut(s)	87
GlaI	GCGC	4 cut(s)	87, 140, 346, 427
GluI	GCNGC	6 cut(s)	66, 326, 329, 405, 424, 471
GsuI	CTGGAG	1 cut(s)	554
HaeII	RGCGCY	2 cut(s)	142, 429
HaeIII	GGCC	4 cut(s)	19, 259, 263, 356
HapII	CCGG	2 cut(s)	260, 487
HgaI	GACGC	1 cut(s)	193
HhaI	GCGC	4 cut(s)	88, 141, 347, 428
Hin1I	GRCGYC	2 cut(s)	139, 185
Hin1II	CATG	1 cut(s)	325
Hin6I	GCGC	4 cut(s)	86, 139, 345, 426
HinP1I	GCGC	4 cut(s)	86, 139, 345, 426
HindIII	AAGCTT	2 cut(s)	301, 514
HinfI	GANTC	3 cut(s)	211, 251, 548
HpaII	CCGG	2 cut(s)	260, 487
HphI	GGTGA	1 cut(s)	470
Hpy166II	GTNNAC	2 cut(s)	192, 461
Hpy188I	TCNGA	3 cut(s)	48, 512, 615
Hpy188III	TCNNGA	2 cut(s)	178, 215
Hpy8I	GTNNAC	2 cut(s)	192, 461
Hpy99I	CGWCG	3 cut(s)	187, 400, 497
HpyAV	CCTTC	4 cut(s)	30, 109, 212, 379
HpyCH4IV	ACGT	1 cut(s)	78
HpyCH4V	TGCA	7 cut(s)	68, 76, 208, 232, 275, 325, 629
HpyF10VI	GCNNNNNNNGC	3 cut(s)	229, 344, 353
HpyF3I	CTNAG	1 cut(s)	408
HpySE526I	ACGT	1 cut(s)	78
Hsp92I	GRCGYC	2 cut(s)	139, 185
Hsp92II	CATG	1 cut(s)	325
HspAI	GCGC	4 cut(s)	86, 139, 345, 426
KasI	GGCGCC	1 cut(s)	138
KroI	GCCGGC	1 cut(s)	259
KroNI	GCCGGC	1 cut(s)	261
KspI	CCGCGG	1 cut(s)	94
Kzo9I	GATC	2 cut(s)	161, 571
LmnI	GCTCC	1 cut(s)	535
Lsp1109I	GCAGC	6 cut(s)	52, 337, 340, 416, 435, 457
MaeII	ACGT	1 cut(s)	78
MaeIII	GTNAC	1 cut(s)	79
MalI	GATC	2 cut(s)	163, 573
MboI	GATC	2 cut(s)	161, 571
MboII	GAAGA	3 cut(s)	101, 499, 658
MluCI	AATT	3 cut(s)	42, 363, 660
Mly113I	GGCGCC	1 cut(s)	139
MlyI	GAGTC	1 cut(s)	260
MmeI	TCCRAC	1 cut(s)	417
MnlI	CCTC	4 cut(s)	277, 343, 346, 637
MroNI	GCCGGC	1 cut(s)	259
MroXI	GAANNNNTTC	2 cut(s)	222, 503
MspA1I	CMGCKG	2 cut(s)	93, 407
MspI	CCGG	2 cut(s)	260, 487
MspR9I	CCNGG	6 cut(s)	282, 314, 374, 487, 488, 533
MvaI	CCWGG	4 cut(s)	282, 314, 374, 533
MvnI	CGCG	2 cut(s)	93, 345
MwoI	GCNNNNNNNGC	3 cut(s)	229, 344, 353
NaeI	GCCGGC	1 cut(s)	261
NarI	GGCGCC	1 cut(s)	139
NciI	CCSGG	2 cut(s)	487, 488
NdeII	GATC	2 cut(s)	161, 571
NgoMIV	GCCGGC	1 cut(s)	259
NlaIII	CATG	1 cut(s)	325
NlaIV	GGNNCC	5 cut(s)	97, 140, 264, 311, 387
NmeAIII	GCCGAG	2 cut(s)	373, 382
NmuCI	GTSAC	1 cut(s)	79
NsbI	TGCGCA	1 cut(s)	87
PdiI	GCCGGC	1 cut(s)	261
PdmI	GAANNNNTTC	2 cut(s)	222, 503
PfeI	GAWTC	2 cut(s)	211, 548
PkrI	GCNGC	6 cut(s)	67, 327, 330, 406, 425, 472
PleI	GAGTC	1 cut(s)	259
PluTI	GGCGCC	1 cut(s)	142
PmaCI	CACGTG	1 cut(s)	79
PmlI	CACGTG	1 cut(s)	79
PpsI	GAGTC	1 cut(s)	259
Ppu21I	YACGTR	1 cut(s)	79
PpuMI	RGGWCCY	1 cut(s)	96
Psp5II	RGGWCCY	1 cut(s)	96
Psp6I	CCWGG	4 cut(s)	280, 312, 372, 531
PspCI	CACGTG	1 cut(s)	79
PspGI	CCWGG	4 cut(s)	280, 312, 372, 531
PspN4I	GGNNCC	5 cut(s)	97, 140, 264, 311, 387
PspPI	GGNCC	4 cut(s)	96, 257, 262, 310
PspPPI	RGGWCCY	1 cut(s)	96
PvuII	CAGCTG	1 cut(s)	407
RigI	GGCCGGCC	1 cut(s)	263
SacII	CCGCGG	1 cut(s)	94
SatI	GCNGC	6 cut(s)	66, 326, 329, 405, 424, 471
Sau3AI	GATC	2 cut(s)	161, 571
Sau96I	GGNCC	4 cut(s)	96, 257, 262, 310
SchI	GAGTC	1 cut(s)	260
ScrFI	CCNGG	6 cut(s)	282, 314, 374, 487, 488, 533
SfoI	GGCGCC	1 cut(s)	140
Sfr303I	CCGCGG	1 cut(s)	94
SgrBI	CCGCGG	1 cut(s)	94
SinI	GGWCC	2 cut(s)	96, 310
SmaI	CCCGGG	1 cut(s)	488
Sse9I	AATT	3 cut(s)	42, 363, 660
SsiI	CCGC	2 cut(s)	91, 93
SspDI	GGCGCC	1 cut(s)	138
StyD4I	CCNGG	6 cut(s)	280, 312, 372, 485, 486, 531
TaiI	ACGT	1 cut(s)	81
TaqI	TCGA	1 cut(s)	160
TasI	AATT	3 cut(s)	42, 363, 660
TfiI	GAWTC	2 cut(s)	211, 548
TseFI	GTSAC	1 cut(s)	79
TseI	GCWGC	6 cut(s)	65, 325, 328, 404, 423, 470
Tsp45I	GTSAC	1 cut(s)	79
TspDTI	ATGAA	2 cut(s)	101, 516
TspMI	CCCGGG	1 cut(s)	486
VpaK11BI	GGWCC	2 cut(s)	96, 310
XapI	RAATTY	2 cut(s)	42, 363
XmaI	CCCGGG	1 cut(s)	486
XmnI	GAANNNNTTC	2 cut(s)	222, 503

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