Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0009072

Physical Location & Seq

Genomic Coordinates Reverse (-)

21705146 .. 21709341

Gene Structure 4196 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG223000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGGCTTCTCCCTACAGAACCCAGGCCGCTAAGAGATGGCTTCCTCTTGAAGCTAATCCCGATGTTATGAACCAGTTCCTTTGGGGATTGGGTCTTCAAGAGGATGAGGCAGAATGCTATGACGTTTACGGTTTGGATGGAGAACTCTTAGAAATGGTTCCAAAGCCTGTACTTGCTGTGCTGTTTCTTTATCCTTTAACCCCCAAGACTGAAGAAGAGAGAATGATGCAGTTAAATGAAAAACAGGAAACCAAAGATAATGTTTATTTTATGAAACAAACCGTGGGCAATGCTTGTGGAACTATTGGACTTCTGCATGCTGTTGGAAACATCACTTCAGAGATCAAACTTGTTGACGGGTCATTCTTGGATAGATTTTTCAAAAGTACTGCAAGCATGGATCCATTGGAGCGTGCAGCATTCCTTGAAAATGACAATGAAATGGAAGTTGCTCATTCAGTAGCAGCTACTGCTGGTGACACAGAGGCTACAGATGAGGTTGACACTCACTTTATCAGCTATGCATGTGTGGACGGGGAACTATATGAGCTTGATGGGAGGAAGTCAGGTCCGATCTCTCACGGCCCGTCTTCACCAACCACTCTATTACAGGATGCAGCTAAAGTCATACAGGGCATGATCCAGAAAAATCCCGAGTCTCTCAACTTCAACGTCATTGCCATTTCGAAGAAATCTGGGGGATTTTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0003824 GO:0004300 GO:0004843 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005829 GO:0006082 GO:0006464 GO:0006508 GO:0006629 GO:0006631 GO:0006635 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0008234 GO:0009056 GO:0009062 GO:0009987 GO:0016042 GO:0016054 GO:0016579 GO:0016787 GO:0016829 GO:0016835 GO:0016836 GO:0019395 GO:0019538 GO:0019752 GO:0019783 GO:0030258 GO:0032787 GO:0034440 GO:0036211 GO:0036459 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043436 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044260 GO:0044267 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0055114 GO:0070011 GO:0070646 GO:0070647 GO:0071704 GO:0072329 GO:0097159 GO:0101005 GO:0140096 GO:1901363 GO:1901564 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Peptidase_C12

Protein Analysis

236

Amino Acids

25.99

Weight (kDa)

4.54

Isoelectric Point (pI)

35.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Peptidase_C12	PF01088	13 - 215	2.1e-67	Ubiquitin carboxyl-terminal hydrolase, family 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009072)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G17510
fragaria_vesca	FvH4_5g19870
malus_domestica	MD04G1057500.v1.1 MD06G1051100.v1.1
prunus_persica	Prupe.5G061500_v2.0.a1
pyrus_communis	pycom06g04330
rosa_chinensis	RchiOBHm_Chr7g0204661 RchiOBHm_Chr7g0214021
rosa_laevigata	RLG00000003440
rosa_multiflora	Rmu_sc0007104.1_g000010
rosa_roxburghii	Rroxscaffold_3G00245580 Rroxscaffold_3G00252890 Rroxscaffold_4G00300770
rosa_rugosa	Rorug07G0085400 Rorug07G0145300
rosa_samantha	Rh7AG215300 Rh7BG212500 Rh7BG272200 Rh7CG228400 Rh7CG297700 Rh7DG223000
rosa_wichuraiana	Rw7G018660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	27
AclWI	GGATC	3 cut(s)	395, 408, 634
AcuI	CTGAAG	2 cut(s)	231, 321
AfaI	GTAC	2 cut(s)	171, 388
AgsI	TTSAA	5 cut(s)	50, 98, 382, 428, 670
AjnI	CCWGG	1 cut(s)	21
AluBI	AGCT	5 cut(s)	53, 467, 519, 550, 620
AluI	AGCT	5 cut(s)	53, 467, 519, 550, 620
Alw26I	GTCTC	1 cut(s)	663
AlwI	GGATC	3 cut(s)	395, 408, 634
AlwNI	CAGNNNCTG	1 cut(s)	470
Ama87I	CYCGRG	1 cut(s)	653
AoxI	GGCC	2 cut(s)	24, 583
ApeKI	GCWGC	3 cut(s)	416, 464, 617
Asp700I	GAANNNNTTC	2 cut(s)	74, 156
AspS9I	GGNCC	2 cut(s)	569, 584
AsuHPI	GGTGA	2 cut(s)	488, 585
AsuII	TTCGAA	1 cut(s)	686
AvaI	CYCGRG	1 cut(s)	653
AvaII	GGWCC	1 cut(s)	569
BamHI	GGATCC	1 cut(s)	400
BbsI	GAAGAC	2 cut(s)	86, 582
BbvI	GCAGC	3 cut(s)	428, 476, 629
BccI	CCATC	3 cut(s)	30, 131, 548
BceAI	ACGGC	1 cut(s)	598
BciT130I	CCWGG	1 cut(s)	23
BcoDI	GTCTC	1 cut(s)	663
BfmI	CTRYAG	2 cut(s)	13, 489
BisI	GCNGC	4 cut(s)	27, 417, 465, 618
BlsI	GCNGC	4 cut(s)	28, 418, 466, 619
BmcAI	AGTACT	1 cut(s)	388
Bme1390I	CCNGG	1 cut(s)	23
Bme18I	GGWCC	1 cut(s)	569
BmeT110I	CYCGRG	1 cut(s)	653
BmgT120I	GGNCC	2 cut(s)	569, 584
BmiI	GGNNCC	2 cut(s)	159, 402
BmrFI	CCNGG	1 cut(s)	23
BmsI	GCATC	2 cut(s)	216, 604
BpiI	GAAGAC	2 cut(s)	86, 582
Bpu14I	TTCGAA	1 cut(s)	686
BsaJI	CCNNGG	2 cut(s)	21, 282
Bse1I	ACTGG	1 cut(s)	73
Bse3DI	GCAATG	2 cut(s)	295, 675
BseBI	CCWGG	1 cut(s)	23
BseDI	CCNNGG	2 cut(s)	21, 282
BseGI	GGATG	3 cut(s)	109, 142, 619
BseMI	GCAATG	2 cut(s)	295, 675
BseNI	ACTGG	1 cut(s)	73
BseXI	GCAGC	3 cut(s)	428, 476, 629
BsgI	GTGCAG	1 cut(s)	435
BshFI	GGCC	2 cut(s)	26, 585
BsiHKCI	CYCGRG	1 cut(s)	653
BsmAI	GTCTC	1 cut(s)	663
BsmI	GAATGC	2 cut(s)	119, 419
BsnI	GGCC	2 cut(s)	26, 585
BsoBI	CYCGRG	1 cut(s)	653
Bsp119I	TTCGAA	1 cut(s)	686
Bsp143I	GATC	4 cut(s)	342, 400, 573, 639
BspACI	CCGC	1 cut(s)	27
BspANI	GGCC	2 cut(s)	26, 585
BspLI	GGNNCC	2 cut(s)	159, 402
BspPI	GGATC	3 cut(s)	395, 408, 634
BspT104I	TTCGAA	1 cut(s)	686
BsrDI	GCAATG	2 cut(s)	295, 675
BsrI	ACTGG	1 cut(s)	73
BssECI	CCNNGG	2 cut(s)	21, 282
BssMI	GATC	4 cut(s)	342, 400, 573, 639
Bst2UI	CCWGG	1 cut(s)	23
Bst4CI	ACNGT	2 cut(s)	131, 283
Bst6I	CTCTTC	1 cut(s)	210
BstAPI	GCANNNNNTGC	1 cut(s)	470
BstBI	TTCGAA	1 cut(s)	686
BstC8I	GCNNGC	3 cut(s)	318, 394, 414
BstDEI	CTNAG	2 cut(s)	30, 148
BstDSI	CCRYGG	1 cut(s)	282
BstF5I	GGATG	3 cut(s)	109, 142, 619
BstKTI	GATC	4 cut(s)	345, 403, 576, 642
BstMAI	GTCTC	1 cut(s)	663
BstMBI	GATC	4 cut(s)	342, 400, 573, 639
BstMWI	GCNNNNNNNGC	1 cut(s)	470
BstNI	CCWGG	1 cut(s)	23
BstNSI	RCATGY	2 cut(s)	320, 528
BstSCI	CCNGG	1 cut(s)	21
BstSFI	CTRYAG	2 cut(s)	13, 489
BstV1I	GCAGC	3 cut(s)	428, 476, 629
BstV2I	GAAGAC	2 cut(s)	86, 582
BstX2I	RGATCY	1 cut(s)	400
BstYI	RGATCY	1 cut(s)	400
BsuRI	GGCC	2 cut(s)	26, 585
BtgI	CCRYGG	1 cut(s)	282
BtsCI	GGATG	3 cut(s)	109, 142, 619
Cac8I	GCNNGC	3 cut(s)	318, 394, 414
CaiI	CAGNNNCTG	1 cut(s)	470
Cfr13I	GGNCC	2 cut(s)	569, 584
Csp6I	GTAC	2 cut(s)	170, 387
CspCI	CAANNNNNGTGG	2 cut(s)	277, 312
CviAII	CATG	4 cut(s)	317, 397, 525, 637
CviQI	GTAC	2 cut(s)	170, 387
DdeI	CTNAG	2 cut(s)	30, 148
DpnI	GATC	4 cut(s)	344, 402, 575, 641
DpnII	GATC	4 cut(s)	342, 400, 573, 639
Eam1104I	CTCTTC	1 cut(s)	210
EarI	CTCTTC	1 cut(s)	210
Eco47I	GGWCC	1 cut(s)	569
Eco57I	CTGAAG	2 cut(s)	231, 321
Eco88I	CYCGRG	1 cut(s)	653
EcoRII	CCWGG	1 cut(s)	21
EcoT22I	ATGCAT	1 cut(s)	526
FaeI	CATG	4 cut(s)	320, 400, 528, 640
FatI	CATG	4 cut(s)	316, 396, 524, 636
Fnu4HI	GCNGC	4 cut(s)	27, 417, 465, 618
FokI	GGATG	3 cut(s)	116, 149, 626
Fsp4HI	GCNGC	4 cut(s)	27, 417, 465, 618
GluI	GCNGC	4 cut(s)	27, 417, 465, 618
HaeIII	GGCC	2 cut(s)	26, 585
Hin1II	CATG	4 cut(s)	320, 400, 528, 640
HincII	GTYRAC	2 cut(s)	355, 502
HindII	GTYRAC	2 cut(s)	355, 502
HinfI	GANTC	1 cut(s)	656
HphI	GGTGA	2 cut(s)	488, 585
Hpy166II	GTNNAC	4 cut(s)	127, 355, 502, 532
Hpy188I	TCNGA	2 cut(s)	340, 573
Hpy188III	TCNNGA	5 cut(s)	47, 59, 98, 643, 653
Hpy8I	GTNNAC	4 cut(s)	127, 355, 502, 532
HpyCH4III	ACNGT	2 cut(s)	131, 283
HpyCH4IV	ACGT	2 cut(s)	123, 672
HpyCH4V	TGCA	6 cut(s)	229, 316, 392, 416, 524, 617
HpyF10VI	GCNNNNNNNGC	1 cut(s)	470
HpyF3I	CTNAG	2 cut(s)	30, 148
HpySE526I	ACGT	2 cut(s)	123, 672
Hsp92II	CATG	4 cut(s)	320, 400, 528, 640
Kzo9I	GATC	4 cut(s)	342, 400, 573, 639
LmnI	GCTCC	1 cut(s)	409
Lsp1109I	GCAGC	3 cut(s)	428, 476, 629
LweI	GCATC	2 cut(s)	216, 604
MaeII	ACGT	2 cut(s)	123, 672
MaeIII	GTNAC	1 cut(s)	476
MalI	GATC	4 cut(s)	344, 402, 575, 641
MboI	GATC	4 cut(s)	342, 400, 573, 639
MboII	GAAGA	5 cut(s)	86, 224, 227, 582, 700
MflI	RGATCY	1 cut(s)	400
MlyI	GAGTC	1 cut(s)	665
MmeI	TCCRAC	1 cut(s)	304
MnlI	CCTC	6 cut(s)	54, 94, 100, 478, 490, 552
Mph1103I	ATGCAT	1 cut(s)	526
MroXI	GAANNNNTTC	2 cut(s)	74, 156
MseI	TTAA	3 cut(s)	197, 233, 709
MspR9I	CCNGG	1 cut(s)	23
Mva1269I	GAATGC	2 cut(s)	119, 419
MvaI	CCWGG	1 cut(s)	23
MwoI	GCNNNNNNNGC	1 cut(s)	470
NdeII	GATC	4 cut(s)	342, 400, 573, 639
NlaIII	CATG	4 cut(s)	320, 400, 528, 640
NlaIV	GGNNCC	2 cut(s)	159, 402
NmuCI	GTSAC	1 cut(s)	476
NsiI	ATGCAT	1 cut(s)	526
NspI	RCATGY	2 cut(s)	320, 528
NspV	TTCGAA	1 cut(s)	686
PaeI	GCATGC	1 cut(s)	320
PctI	GAATGC	2 cut(s)	119, 419
PdmI	GAANNNNTTC	2 cut(s)	74, 156
PkrI	GCNGC	4 cut(s)	28, 418, 466, 619
PleI	GAGTC	1 cut(s)	664
PpsI	GAGTC	1 cut(s)	664
Psp6I	CCWGG	1 cut(s)	21
PspGI	CCWGG	1 cut(s)	21
PspN4I	GGNNCC	2 cut(s)	159, 402
PspPI	GGNCC	2 cut(s)	569, 584
PstNI	CAGNNNCTG	1 cut(s)	470
PsuI	RGATCY	1 cut(s)	400
RsaI	GTAC	2 cut(s)	171, 388
RsaNI	GTAC	2 cut(s)	170, 387
SaqAI	TTAA	3 cut(s)	197, 233, 709
SatI	GCNGC	4 cut(s)	27, 417, 465, 618
Sau3AI	GATC	4 cut(s)	342, 400, 573, 639
Sau96I	GGNCC	2 cut(s)	569, 584
ScaI	AGTACT	1 cut(s)	388
SchI	GAGTC	1 cut(s)	665
ScrFI	CCNGG	1 cut(s)	23
SetI	ASST	9 cut(s)	55, 126, 469, 501, 521, 552, 571, 622, 675
SfaNI	GCATC	2 cut(s)	216, 604
SfcI	CTRYAG	2 cut(s)	13, 489
SfuI	TTCGAA	1 cut(s)	686
SinI	GGWCC	1 cut(s)	569
SphI	GCATGC	1 cut(s)	320
SsiI	CCGC	1 cut(s)	27
StyD4I	CCNGG	1 cut(s)	21
TaaI	ACNGT	2 cut(s)	131, 283
TaiI	ACGT	2 cut(s)	126, 675
TaqI	TCGA	1 cut(s)	686
TatI	WGTACW	2 cut(s)	169, 386
TauI	GCSGC	1 cut(s)	29
Tru1I	TTAA	3 cut(s)	197, 233, 709
Tru9I	TTAA	3 cut(s)	197, 233, 709
TseFI	GTSAC	1 cut(s)	476
TseI	GCWGC	3 cut(s)	416, 464, 617
Tsp45I	GTSAC	1 cut(s)	476
TspDTI	ATGAA	4 cut(s)	83, 252, 287, 453
VpaK11BI	GGWCC	1 cut(s)	569
XceI	RCATGY	2 cut(s)	320, 528
XmnI	GAANNNNTTC	2 cut(s)	74, 156
ZrmI	AGTACT	1 cut(s)	388
Zsp2I	ATGCAT	1 cut(s)	526

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