Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0003135

Physical Location & Seq

Genomic Coordinates Reverse (-)

57720206 .. 57723073

Gene Structure 2868 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG353600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGGATGTGATTAAAACGCAGCAAATCTCAGCGAGGCCGATCGAGAAGGTGATAGTTCACCCTCTGGTTCTGCTCAGCATCGTCGACAACTACAACCGGGTCGCCAAGGACACTCGCAAGCGCGTCGTTGGGGTTCTCCTCGGCTCCTCTTACCGCGGCACCGTGGACGTCAGCAACAGCTACGCCGTGCCCTTTGAAGAAGATGACAAGGACCCAAGTATCTGGTTTCTTGATCACAACTACCATGAAGCCATGTATTCCATGTCGAAGAGAATTAATGCAAAGGAGCATGTTGTGGGATGGTACAGCACGGGCCCAAAGTTGCGAGAAAATGACTTAGACGTTCACAGTTTGTTTACTGACTATGTTCCAAATCCTGTCTTGGTCATAATTGATGTCCAACCTAAGGAGCTGGGAATACCCACAAAAGCTTACTGTGCTGTTGAAGAGGTTAAAGAGAATGCTACCCAGAAAAGCCAGAAGGTATTCGTTCATGTACCCTCTGAAATTGCTGCGCATGAAGTTGAGGAGATTGGAGTGGAACACTTGCTTAGAGATGTGAAGGATACAACCATCAGCACTCTTGCAACAGAGGTTACTGGGAAGCTCACAGCTTTGAAGGGGTTGGATGCTAGGCTCCGTGAGATACGGAGTTATCTTGACCTCGTTATTGACGAGAAGCTCCCATTGAACCATGAGATTTTGTACCACCTACAGGATGTGTTCAATTTACTCCCCAATCTGAATGTTTCGGAGTTGATCAAGGGCTTTGCAGTGAAAACAAATGATATGATGCTGGTTATTTATCTTTCTTCCCTCATCCGAAGTGTTATTGCTCTTCACAACTTGATCAACAACAAGATGCAGAATAAGGAGCACGAAAAGGCTGAAGACTCCAAACCAGTTCCCGTACCGGCTGCAGCCAGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000502 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010498 GO:0019538 GO:0019941 GO:0022414 GO:0030163 GO:0032501 GO:0032502 GO:0032991 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051603 GO:0061458 GO:0071704 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

JAB MitMem_reg

Protein Analysis

309

Amino Acids

34.84

Weight (kDa)

5.85

Isoelectric Point (pI)

38.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
JAB	PF01398	14 - 125	1.9e-34	JAB1/Mov34/MPN/PAD-1 ubiquitin protease
MitMem_reg	PF13012	174 - 285	7.1e-39	Maintenance of mitochondrial structure and function

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: OG0003135)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G11270 AT3G11270 AT5G05780 AT5G05780
fragaria_vesca	FvH4_6g11900 FvH4_7g24080
malus_domestica	MD01G1147900.v1.1 MD04G1148200.v1.1 MD07G1215000.v1.1 MD12G1161700.v1.1
prunus_persica	Prupe.2G247000_v2.0.a1 Prupe.2G247000_v2.0.a1 Prupe.6G272100_v2.0.a1
pyrus_communis	pycom01g16670 pycom04g13410 pycom07g19730 pycom12g15350
rosa_chinensis	RchiOBHm_Chr1g0369511 RchiOBHm_Chr3g0463641
rosa_laevigata	RLG00000024766 RLG00000027123
rosa_multiflora	Rmu_sc0003267.1_g000028 Rmu_ssc0000484.1_g000026
rosa_roxburghii	Rroxscaffold_4G00287570 Rroxscaffold_6G00416390
rosa_rugosa	Rorug01G0351000 Rorug03G0066700
rosa_samantha	Rh1AG359100 Rh1BG322800 Rh1CG336100 Rh1DG353600 Rh3AG123700 Rh3BG128400 Rh3CG130600 Rh3DG129000
rosa_wichuraiana	Rw1G031620 Rw3G010460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	171
Acc16I	TGCGCA	1 cut(s)	516
AccB1I	GGYRCC	1 cut(s)	158
AccI	GTMKAC	1 cut(s)	84
AccII	CGCG	2 cut(s)	123, 156
AciI	CCGC	2 cut(s)	154, 156
AcuI	CTGAAG	1 cut(s)	909
AcyI	GRCGYC	1 cut(s)	168
AfaI	GTAC	4 cut(s)	305, 498, 707, 912
AfiI	CCNNNNNNNGG	2 cut(s)	406, 715
AgsI	TTSAA	5 cut(s)	197, 446, 619, 691, 727
AluBI	AGCT	7 cut(s)	180, 412, 431, 607, 614, 682, 927
AluI	AGCT	7 cut(s)	180, 412, 431, 607, 614, 682, 927
Alw21I	GWGCWC	1 cut(s)	879
AoxI	GGCC	2 cut(s)	35, 313
ApaI	GGGCCC	1 cut(s)	317
ApeKI	GCWGC	4 cut(s)	19, 512, 917, 920
AseI	ATTAAT	1 cut(s)	276
Asp700I	GAANNNNTTC	1 cut(s)	485
AspLEI	GCGC	2 cut(s)	123, 517
AspS9I	GGNCC	3 cut(s)	211, 313, 314
AsuC2I	CCSGG	1 cut(s)	98
AsuHPI	GGTGA	2 cut(s)	50, 61
AvaII	GGWCC	1 cut(s)	211
AxyI	CCTNAGG	1 cut(s)	405
BaeGI	GKGCMC	2 cut(s)	192, 317
BaeI	ACNNNNGTAYC	2 cut(s)	202, 235
BanI	GGYRCC	1 cut(s)	158
BanII	GRGCYC	1 cut(s)	317
BbsI	GAAGAC	1 cut(s)	897
Bbv12I	GWGCWC	1 cut(s)	879
BbvI	GCAGC	3 cut(s)	31, 499, 904
BccI	CCATC	2 cut(s)	294, 581
BceAI	ACGGC	1 cut(s)	170
BcgI	CGANNNNNNTGC	2 cut(s)	106, 140
BciVI	GTATCC	1 cut(s)	559
BclI	TGATCA	3 cut(s)	232, 759, 849
BcnI	CCSGG	1 cut(s)	98
BfaI	CTAG	2 cut(s)	633, 928
BfmI	CTRYAG	2 cut(s)	713, 918
BfuI	GTATCC	1 cut(s)	559
BisI	GCNGC	5 cut(s)	20, 157, 513, 918, 921
BlpI	GCTNAGC	1 cut(s)	74
BlsI	GCNGC	5 cut(s)	21, 158, 514, 919, 922
Bme1390I	CCNGG	1 cut(s)	98
Bme18I	GGWCC	1 cut(s)	211
BmgT120I	GGNCC	3 cut(s)	211, 313, 314
BmiI	GGNNCC	5 cut(s)	145, 160, 213, 315, 638
BmrFI	CCNGG	1 cut(s)	98
BmrI	ACTGGG	1 cut(s)	609
BmsI	GCATC	4 cut(s)	87, 619, 783, 852
BmuI	ACTGGG	1 cut(s)	609
BpiI	GAAGAC	1 cut(s)	897
Bpu1102I	GCTNAGC	1 cut(s)	74
BpuMI	CCSGG	1 cut(s)	98
BsaHI	GRCGYC	1 cut(s)	168
BsaJI	CCNNGG	4 cut(s)	105, 139, 154, 162
Bsc4I	CCNNNNNNNGG	2 cut(s)	406, 715
Bse118I	RCCGGY	1 cut(s)	913
Bse1I	ACTGG	2 cut(s)	604, 902
Bse21I	CCTNAGG	1 cut(s)	405
BseDI	CCNNGG	4 cut(s)	105, 139, 154, 162
BseGI	GGATG	5 cut(s)	10, 305, 634, 724, 819
BseLI	CCNNNNNNNGG	2 cut(s)	406, 715
BseMII	CTCAG	2 cut(s)	42, 88
BseNI	ACTGG	2 cut(s)	604, 902
BseRI	GAGGAG	3 cut(s)	128, 136, 542
BseSI	GKGCMC	2 cut(s)	192, 317
BseXI	GCAGC	3 cut(s)	31, 499, 904
BseYI	CCCAGC	1 cut(s)	412
Bsh1236I	CGCG	2 cut(s)	123, 156
Bsh1285I	CGRYCG	1 cut(s)	42
BshFI	GGCC	2 cut(s)	37, 315
BshNI	GGYRCC	1 cut(s)	158
BsiEI	CGRYCG	1 cut(s)	42
BsiHKAI	GWGCWC	1 cut(s)	879
BsiSI	CCGG	2 cut(s)	97, 914
BslI	CCNNNNNNNGG	2 cut(s)	406, 715
BsmI	GAATGC	1 cut(s)	466
BsnI	GGCC	2 cut(s)	37, 315
Bsp120I	GGGCCC	1 cut(s)	313
Bsp1286I	GDGCHC	3 cut(s)	192, 317, 879
Bsp143I	GATC	4 cut(s)	39, 232, 759, 849
Bsp1720I	GCTNAGC	1 cut(s)	74
BspACI	CCGC	2 cut(s)	154, 156
BspANI	GGCC	2 cut(s)	37, 315
BspCNI	CTCAG	2 cut(s)	41, 87
BspFNI	CGCG	2 cut(s)	123, 156
BspLI	GGNNCC	5 cut(s)	145, 160, 213, 315, 638
BspMAI	CTGCAG	1 cut(s)	922
BspQI	GCTCTTC	1 cut(s)	843
BspT107I	GGYRCC	1 cut(s)	158
BsrFI	RCCGGY	1 cut(s)	913
BsrI	ACTGG	2 cut(s)	604, 902
BssAI	RCCGGY	1 cut(s)	913
BssECI	CCNNGG	4 cut(s)	105, 139, 154, 162
BssMI	GATC	4 cut(s)	39, 232, 759, 849
BssNI	GRCGYC	1 cut(s)	168
BssT1I	CCWWGG	1 cut(s)	105
Bst4CI	ACNGT	3 cut(s)	163, 350, 437
Bst6I	CTCTTC	3 cut(s)	263, 441, 843
BstACI	GRCGYC	1 cut(s)	168
BstC8I	GCNNGC	2 cut(s)	119, 925
BstDEI	CTNAG	5 cut(s)	28, 74, 337, 405, 551
BstDSI	CCRYGG	2 cut(s)	154, 162
BstF5I	GGATG	5 cut(s)	10, 305, 634, 724, 819
BstFNI	CGCG	2 cut(s)	123, 156
BstHHI	GCGC	2 cut(s)	123, 517
BstKTI	GATC	4 cut(s)	42, 235, 762, 852
BstMBI	GATC	4 cut(s)	39, 232, 759, 849
BstMCI	CGRYCG	1 cut(s)	42
BstMWI	GCNNNNNNNGC	1 cut(s)	437
BstNSI	RCATGY	1 cut(s)	293
BstSCI	CCNGG	1 cut(s)	96
BstSFI	CTRYAG	2 cut(s)	713, 918
BstSLI	GKGCMC	2 cut(s)	192, 317
BstUI	CGCG	2 cut(s)	123, 156
BstV1I	GCAGC	3 cut(s)	31, 499, 904
BstV2I	GAAGAC	1 cut(s)	897
BstXI	CCANNNNNNTGG	1 cut(s)	222
Bsu36I	CCTNAGG	1 cut(s)	405
BsuI	GTATCC	1 cut(s)	559
BsuRI	GGCC	2 cut(s)	37, 315
BtgI	CCRYGG	2 cut(s)	154, 162
BtsCI	GGATG	5 cut(s)	10, 305, 634, 724, 819
BtsI	GCAGTG	1 cut(s)	780
BtsIMutI	CAGTG	1 cut(s)	780
Cac8I	GCNNGC	2 cut(s)	119, 925
CfoI	GCGC	2 cut(s)	123, 517
Cfr10I	RCCGGY	1 cut(s)	913
Cfr13I	GGNCC	3 cut(s)	211, 313, 314
Cfr42I	CCGCGG	1 cut(s)	157
CseI	GACGC	1 cut(s)	112
Csp6I	GTAC	4 cut(s)	304, 497, 706, 911
CviAII	CATG	7 cut(s)	245, 253, 262, 290, 494, 518, 695
CviQI	GTAC	4 cut(s)	304, 497, 706, 911
DdeI	CTNAG	5 cut(s)	28, 74, 337, 405, 551
DpnI	GATC	4 cut(s)	41, 234, 761, 851
DpnII	GATC	4 cut(s)	39, 232, 759, 849
Eam1104I	CTCTTC	3 cut(s)	263, 441, 843
EarI	CTCTTC	3 cut(s)	263, 441, 843
Eco130I	CCWWGG	1 cut(s)	105
Eco24I	GRGCYC	1 cut(s)	317
Eco47I	GGWCC	1 cut(s)	211
Eco57I	CTGAAG	1 cut(s)	909
Eco81I	CCTNAGG	1 cut(s)	405
EcoO109I	RGGNCCY	1 cut(s)	211
EcoT14I	CCWWGG	1 cut(s)	105
EcoT38I	GRGCYC	1 cut(s)	317
ErhI	CCWWGG	1 cut(s)	105
FaeI	CATG	7 cut(s)	248, 256, 265, 293, 497, 521, 698
FatI	CATG	7 cut(s)	244, 252, 261, 289, 493, 517, 694
FbaI	TGATCA	3 cut(s)	232, 759, 849
FblI	GTMKAC	1 cut(s)	84
Fnu4HI	GCNGC	5 cut(s)	20, 157, 513, 918, 921
FokI	GGATG	5 cut(s)	17, 312, 641, 731, 806
FriOI	GRGCYC	1 cut(s)	317
Fsp4HI	GCNGC	5 cut(s)	20, 157, 513, 918, 921
FspBI	CTAG	2 cut(s)	633, 928
FspI	TGCGCA	1 cut(s)	516
GlaI	GCGC	2 cut(s)	122, 516
GluI	GCNGC	5 cut(s)	20, 157, 513, 918, 921
GsaI	CCCAGC	1 cut(s)	416
HaeIII	GGCC	2 cut(s)	37, 315
HapII	CCGG	2 cut(s)	97, 914
HgaI	GACGC	1 cut(s)	112
HhaI	GCGC	2 cut(s)	123, 517
Hin1I	GRCGYC	1 cut(s)	168
Hin1II	CATG	7 cut(s)	248, 256, 265, 293, 497, 521, 698
Hin6I	GCGC	2 cut(s)	121, 515
HinP1I	GCGC	2 cut(s)	121, 515
HincII	GTYRAC	1 cut(s)	85
HindII	GTYRAC	1 cut(s)	85
HindIII	AAGCTT	1 cut(s)	429
HinfI	GANTC	1 cut(s)	893
HpaII	CCGG	2 cut(s)	97, 914
HphI	GGTGA	2 cut(s)	50, 61
Hpy166II	GTNNAC	5 cut(s)	58, 85, 166, 346, 357
Hpy188I	TCNGA	4 cut(s)	505, 744, 754, 824
Hpy188III	TCNNGA	3 cut(s)	43, 230, 659
Hpy8I	GTNNAC	5 cut(s)	58, 85, 166, 346, 357
Hpy99I	CGWCG	2 cut(s)	86, 128
HpyAV	CCTTC	4 cut(s)	40, 475, 556, 613
HpyCH4III	ACNGT	3 cut(s)	163, 350, 437
HpyCH4IV	ACGT	2 cut(s)	168, 342
HpyCH4V	TGCA	5 cut(s)	281, 587, 773, 865, 920
HpyF10VI	GCNNNNNNNGC	1 cut(s)	437
HpyF3I	CTNAG	5 cut(s)	28, 74, 337, 405, 551
HpySE526I	ACGT	2 cut(s)	168, 342
Hsp92I	GRCGYC	1 cut(s)	168
Hsp92II	CATG	7 cut(s)	248, 256, 265, 293, 497, 521, 698
HspAI	GCGC	2 cut(s)	121, 515
Ksp22I	TGATCA	3 cut(s)	232, 759, 849
KspI	CCGCGG	1 cut(s)	157
Kzo9I	GATC	4 cut(s)	39, 232, 759, 849
LguI	GCTCTTC	1 cut(s)	843
LmnI	GCTCC	6 cut(s)	149, 286, 409, 642, 687, 874
Lsp1109I	GCAGC	3 cut(s)	31, 499, 904
LweI	GCATC	4 cut(s)	87, 619, 783, 852
MaeI	CTAG	2 cut(s)	633, 928
MaeII	ACGT	2 cut(s)	168, 342
MaeIII	GTNAC	1 cut(s)	595
MalI	GATC	4 cut(s)	41, 234, 761, 851
MboI	GATC	4 cut(s)	39, 232, 759, 849
MboII	GAAGA	7 cut(s)	209, 212, 280, 458, 804, 830, 902
MhlI	GDGCHC	3 cut(s)	192, 317, 879
MluCI	AATT	4 cut(s)	273, 390, 507, 727
MlyI	GAGTC	1 cut(s)	887
MmeI	TCCRAC	2 cut(s)	424, 606
MroXI	GAANNNNTTC	1 cut(s)	485
MseI	TTAA	3 cut(s)	12, 276, 453
MspA1I	CMGCKG	1 cut(s)	156
MspI	CCGG	2 cut(s)	97, 914
MspR9I	CCNGG	1 cut(s)	98
Mva1269I	GAATGC	1 cut(s)	466
MvnI	CGCG	2 cut(s)	123, 156
MwoI	GCNNNNNNNGC	1 cut(s)	437
NciI	CCSGG	1 cut(s)	98
NdeII	GATC	4 cut(s)	39, 232, 759, 849
NlaIII	CATG	7 cut(s)	248, 256, 265, 293, 497, 521, 698
NlaIV	GGNNCC	5 cut(s)	145, 160, 213, 315, 638
NmeAIII	GCCGAG	1 cut(s)	120
NsbI	TGCGCA	1 cut(s)	516
NspI	RCATGY	1 cut(s)	293
PciSI	GCTCTTC	1 cut(s)	843
PcsI	WCGNNNNNNNCGW	1 cut(s)	672
PctI	GAATGC	1 cut(s)	466
PdmI	GAANNNNTTC	1 cut(s)	485
PkrI	GCNGC	5 cut(s)	21, 158, 514, 919, 922
Ple19I	CGATCG	1 cut(s)	42
PleI	GAGTC	1 cut(s)	887
PpsI	GAGTC	1 cut(s)	887
PpuMI	RGGWCCY	1 cut(s)	211
PshBI	ATTAAT	1 cut(s)	276
Psp5II	RGGWCCY	1 cut(s)	211
PspFI	CCCAGC	1 cut(s)	412
PspN4I	GGNNCC	5 cut(s)	145, 160, 213, 315, 638
PspOMI	GGGCCC	1 cut(s)	313
PspPI	GGNCC	3 cut(s)	211, 313, 314
PspPPI	RGGWCCY	1 cut(s)	211
PstI	CTGCAG	1 cut(s)	922
PvuI	CGATCG	1 cut(s)	42
RsaI	GTAC	4 cut(s)	305, 498, 707, 912
RsaNI	GTAC	4 cut(s)	304, 497, 706, 911
SacII	CCGCGG	1 cut(s)	157
SalI	GTCGAC	1 cut(s)	83
SapI	GCTCTTC	1 cut(s)	843
SaqAI	TTAA	3 cut(s)	12, 276, 453
SatI	GCNGC	5 cut(s)	20, 157, 513, 918, 921
Sau3AI	GATC	4 cut(s)	39, 232, 759, 849
Sau96I	GGNCC	3 cut(s)	211, 313, 314
SchI	GAGTC	1 cut(s)	887
ScrFI	CCNGG	1 cut(s)	98
SduI	GDGCHC	3 cut(s)	192, 317, 879
SfaNI	GCATC	4 cut(s)	87, 619, 783, 852
SfcI	CTRYAG	2 cut(s)	713, 918
Sfr303I	CCGCGG	1 cut(s)	157
SgrBI	CCGCGG	1 cut(s)	157
SinI	GGWCC	1 cut(s)	211
Sse9I	AATT	4 cut(s)	273, 390, 507, 727
SsiI	CCGC	2 cut(s)	154, 156
SspMI	CTAG	2 cut(s)	633, 928
StyD4I	CCNGG	1 cut(s)	96
StyI	CCWWGG	1 cut(s)	105
TaaI	ACNGT	3 cut(s)	163, 350, 437
TaiI	ACGT	2 cut(s)	171, 345
TaqI	TCGA	3 cut(s)	42, 84, 266
TasI	AATT	4 cut(s)	273, 390, 507, 727
TauI	GCSGC	1 cut(s)	159
Tru1I	TTAA	3 cut(s)	12, 276, 453
Tru9I	TTAA	3 cut(s)	12, 276, 453
TscAI	CASTG	1 cut(s)	780
TseI	GCWGC	4 cut(s)	19, 512, 917, 920
TspDTI	ATGAA	3 cut(s)	261, 482, 534
TspGWI	ACGGA	2 cut(s)	629, 664
TspRI	CASTG	1 cut(s)	780
VpaK11BI	GGWCC	1 cut(s)	211
VspI	ATTAAT	1 cut(s)	276
XceI	RCATGY	1 cut(s)	293
XmiI	GTMKAC	1 cut(s)	84
XmnI	GAANNNNTTC	1 cut(s)	485
XspI	CTAG	2 cut(s)	633, 928
ZraI	GACGTC	1 cut(s)	169

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