Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0003024

Physical Location & Seq

Genomic Coordinates Reverse (-)

17564489 .. 17570814

Gene Structure 6326 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG093600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGATGACGTACGCAGCCTCAGCTTCAAGGCCTCTCTGCTTCAACACCCAACCGGCCATTGTGAACAGCAATGGTCTTAATAGCACTAGCGCTTCTAGTATCTTCGATTGCAGCAGAACAACAAGGAGGAAGCGCGTCGGCCTAGTTCAAGCCTCGTCCCCTACAAGACCCACCTTGTCCAGCAATTGGGATTTTCAGTTCGCAGCTACTACTACTACTACTTCCTCTCCACGCGTCCCCAGATTCGAAGAGCTCGACACCACCAACATGCTCCTCCGTCAGCGAATCATCTTCTTGGGTTCTCAGGTGGATGATATGACGGCGGATTTGATAATAAGCCAGCTGCTATTTCTGGATGCTGAAGACCCCAAAAAGGACATTACATTGTTTATCAATTCGCCTGGTGGCTCGGTTACTGCGGGAATGGGAATATATGATGCAATGAAATTGTGCAAGGCAGATGTTTCAACTGTTTGCTTGGGGCTTGCTGCTTCTATGGGTGCATTTCTCCTTGCTTCCGGTTCAAAAGGAAAGAGGTACTGCATGCCCAATGCAAGAGTGATGATCCATCAACCTCTTGGAACTGCTGGAGGCAAAGTAAGTGCTTACTTTCTGCTTATATTGTGTATTTTAATTTTCATTTGTGGGGGATTAAAACCTTATTACATGTCAATTTTATGGGGGATTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009368 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009536 GO:0009570 GO:0009579 GO:0009840 GO:0009941 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko04112 ko04212 map04112 map04212

Pfam Domains

Protein Families

CLP_protease

Protein Analysis

229

Amino Acids

24.75

Weight (kDa)

9.15

Isoelectric Point (pI)

41.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	85 - 201	1.3e-52	Clp protease

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

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Publication-ready

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Orthologous Genes (Group: OG0003024)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G66670
fragaria_vesca	FvH4_7g04110
malus_domestica	MD02G1275200.v1.1 MD07G1043100.v1.1
prunus_persica	Prupe.2G045800_v2.0.a1 Prupe.2G045800_v2.0.a1 Prupe.2G045800_v2.0.a1
pyrus_communis	pycom02g23530 pycom07g03020
rosa_chinensis	RchiOBHm_Chr1g0327981 RchiOBHm_Chr1g0372191
rosa_laevigata	RLG00000008647 RLG00000012938 RLG00000021509 RLG00000029950
rosa_multiflora	Rmu_sc0000064.1_g000027 Rmu_sc0000272.1_g000043 Rmu_sc0001755.1_g000019 Rmu_sc0003977.1_g000001 Rmu_sc0007782.1_g000018 Rmu_ssc0000309.1_g000031
rosa_roxburghii	Rroxscaffold_4G00322040
rosa_rugosa	Rorug01G0073100
rosa_samantha	Rh1AG089900 Rh1BG071800 Rh1BG342100 Rh1CG086900 Rh1DG093600 Rh2BG432000 Rh2CG303000 Rh6AG065100 Rh6AG270700 Rh6BG088100 Rh6DG224400 Rh7DG308700
rosa_wichuraiana	Rw0G022860 Rw1G006940 Rw1G006960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	186
AccII	CGCG	2 cut(s)	135, 234
AciI	CCGC	2 cut(s)	323, 419
AclWI	GGATC	1 cut(s)	559
AcoI	YGGCCR	1 cut(s)	54
AcuI	CTGAAG	1 cut(s)	381
AfaI	GTAC	2 cut(s)	11, 539
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	2 cut(s)	186, 373
AflIII	ACRYGT	2 cut(s)	232, 666
AgsI	TTSAA	5 cut(s)	27, 43, 149, 468, 525
AjnI	CCWGG	1 cut(s)	400
AloI	GAACNNNNNNTCC	2 cut(s)	182, 214
AluBI	AGCT	4 cut(s)	23, 206, 253, 343
AluI	AGCT	4 cut(s)	23, 206, 253, 343
Alw21I	GWGCWC	1 cut(s)	255
AlwI	GGATC	1 cut(s)	559
Aor51HI	AGCGCT	1 cut(s)	91
AoxI	GGCC	3 cut(s)	29, 54, 139
ApeKI	GCWGC	5 cut(s)	14, 111, 203, 343, 488
ArsI	GACNNNNNNTTYG	2 cut(s)	310, 342
AspLEI	GCGC	2 cut(s)	92, 135
AsuII	TTCGAA	1 cut(s)	246
BanII	GRGCYC	1 cut(s)	255
BbsI	GAAGAC	1 cut(s)	369
Bbv12I	GWGCWC	1 cut(s)	255
BbvCI	CCTCAGC	1 cut(s)	19
BbvI	GCAGC	5 cut(s)	26, 123, 215, 330, 475
BccI	CCATC	1 cut(s)	576
BceAI	ACGGC	1 cut(s)	336
BciT130I	CCWGG	1 cut(s)	402
BfaI	CTAG	3 cut(s)	87, 96, 143
BfoI	RGCGCY	1 cut(s)	93
BisI	GCNGC	5 cut(s)	15, 112, 204, 344, 489
BlsI	GCNGC	5 cut(s)	16, 113, 205, 345, 490
Bme1390I	CCNGG	1 cut(s)	402
BmrFI	CCNGG	1 cut(s)	402
BmsI	GCATC	2 cut(s)	346, 427
BpiI	GAAGAC	1 cut(s)	369
BpmI	CTGGAG	1 cut(s)	609
Bpu10I	CCTNAGC	1 cut(s)	19
Bpu14I	TTCGAA	1 cut(s)	246
BsaWI	WCCGGW	1 cut(s)	518
BsaXI	ACNNNNNCTCC	4 cut(s)	211, 241, 582, 612
Bsc4I	CCNNNNNNNGG	2 cut(s)	186, 373
Bse118I	RCCGGY	1 cut(s)	52
Bse3DI	GCAATG	2 cut(s)	76, 447
BseBI	CCWGG	1 cut(s)	402
BseGI	GGATG	2 cut(s)	316, 361
BseLI	CCNNNNNNNGG	2 cut(s)	186, 373
BseMI	GCAATG	2 cut(s)	76, 447
BseMII	CTCAG	2 cut(s)	33, 317
BseRI	GAGGAG	1 cut(s)	263
BseXI	GCAGC	5 cut(s)	26, 123, 215, 330, 475
Bsh1236I	CGCG	2 cut(s)	135, 234
BshFI	GGCC	3 cut(s)	31, 56, 141
BsiHKAI	GWGCWC	1 cut(s)	255
BsiSI	CCGG	2 cut(s)	53, 519
BsiWI	CGTACG	1 cut(s)	9
BslFI	GGGAC	2 cut(s)	142, 221
BslI	CCNNNNNNNGG	2 cut(s)	186, 373
BsmFI	GGGAC	2 cut(s)	142, 221
BsnI	GGCC	3 cut(s)	31, 56, 141
Bsp119I	TTCGAA	1 cut(s)	246
Bsp1286I	GDGCHC	1 cut(s)	255
Bsp143I	GATC	1 cut(s)	564
BspACI	CCGC	2 cut(s)	323, 419
BspANI	GGCC	3 cut(s)	31, 56, 141
BspCNI	CTCAG	2 cut(s)	32, 316
BspFNI	CGCG	2 cut(s)	135, 234
BspPI	GGATC	1 cut(s)	559
BspQI	GCTCTTC	1 cut(s)	243
BspT104I	TTCGAA	1 cut(s)	246
BsrDI	GCAATG	2 cut(s)	76, 447
BsrFI	RCCGGY	1 cut(s)	52
BssAI	RCCGGY	1 cut(s)	52
BssMI	GATC	1 cut(s)	564
Bst2UI	CCWGG	1 cut(s)	402
Bst4CI	ACNGT	1 cut(s)	472
Bst6I	CTCTTC	1 cut(s)	243
BstBI	TTCGAA	1 cut(s)	246
BstC8I	GCNNGC	3 cut(s)	341, 486, 545
BstDEI	CTNAG	2 cut(s)	19, 303
BstF5I	GGATG	2 cut(s)	316, 361
BstFNI	CGCG	2 cut(s)	135, 234
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	2 cut(s)	92, 135
BstKTI	GATC	1 cut(s)	567
BstMBI	GATC	1 cut(s)	564
BstMWI	GCNNNNNNNGC	1 cut(s)	20
BstNI	CCWGG	1 cut(s)	402
BstNSI	RCATGY	3 cut(s)	271, 547, 670
BstSCI	CCNGG	1 cut(s)	400
BstUI	CGCG	2 cut(s)	135, 234
BstV1I	GCAGC	5 cut(s)	26, 123, 215, 330, 475
BstV2I	GAAGAC	1 cut(s)	369
BsuRI	GGCC	3 cut(s)	31, 56, 141
BtsCI	GGATG	2 cut(s)	316, 361
Cac8I	GCNNGC	3 cut(s)	341, 486, 545
CfoI	GCGC	2 cut(s)	92, 135
Cfr10I	RCCGGY	1 cut(s)	52
CseI	GACGC	2 cut(s)	124, 223
Csp6I	GTAC	2 cut(s)	10, 538
CviAII	CATG	3 cut(s)	268, 544, 667
CviQI	GTAC	2 cut(s)	10, 538
DdeI	CTNAG	2 cut(s)	19, 303
DpnI	GATC	1 cut(s)	566
DpnII	GATC	1 cut(s)	564
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	243
EarI	CTCTTC	1 cut(s)	243
EciI	GGCGGA	1 cut(s)	338
Ecl136II	GAGCTC	1 cut(s)	253
Eco147I	AGGCCT	1 cut(s)	31
Eco24I	GRGCYC	1 cut(s)	255
Eco47III	AGCGCT	1 cut(s)	91
Eco53kI	GAGCTC	1 cut(s)	253
Eco57I	CTGAAG	1 cut(s)	381
EcoICRI	GAGCTC	1 cut(s)	253
EcoRII	CCWGG	1 cut(s)	400
EcoT38I	GRGCYC	1 cut(s)	255
FaeI	CATG	3 cut(s)	271, 547, 670
FaiI	YATR	9 cut(s)	269, 317, 433, 435, 497, 545, 620, 668, 679
FaqI	GGGAC	2 cut(s)	142, 221
FatI	CATG	3 cut(s)	267, 543, 666
FauI	CCCGC	1 cut(s)	412
Fnu4HI	GCNGC	5 cut(s)	15, 112, 204, 344, 489
FokI	GGATG	2 cut(s)	323, 368
FriOI	GRGCYC	1 cut(s)	255
Fsp4HI	GCNGC	5 cut(s)	15, 112, 204, 344, 489
FspBI	CTAG	3 cut(s)	87, 96, 143
GlaI	GCGC	2 cut(s)	91, 134
GluI	GCNGC	5 cut(s)	15, 112, 204, 344, 489
GsuI	CTGGAG	1 cut(s)	609
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	3 cut(s)	31, 56, 141
HapII	CCGG	2 cut(s)	53, 519
HgaI	GACGC	2 cut(s)	124, 223
HhaI	GCGC	2 cut(s)	92, 135
Hin1II	CATG	3 cut(s)	271, 547, 670
Hin6I	GCGC	2 cut(s)	90, 133
HinP1I	GCGC	2 cut(s)	90, 133
HinfI	GANTC	2 cut(s)	243, 285
HpaII	CCGG	2 cut(s)	53, 519
Hpy166II	GTNNAC	1 cut(s)	64
Hpy188III	TCNNGA	1 cut(s)	353
Hpy8I	GTNNAC	1 cut(s)	64
Hpy99I	CGWCG	1 cut(s)	140
HpyCH4III	ACNGT	1 cut(s)	472
HpyCH4IV	ACGT	1 cut(s)	8
HpyCH4V	TGCA	6 cut(s)	111, 440, 453, 503, 543, 554
HpyF10VI	GCNNNNNNNGC	1 cut(s)	20
HpyF3I	CTNAG	2 cut(s)	19, 303
HpySE526I	ACGT	1 cut(s)	8
Hsp92II	CATG	3 cut(s)	271, 547, 670
HspAI	GCGC	2 cut(s)	90, 133
Kzo9I	GATC	1 cut(s)	564
LguI	GCTCTTC	1 cut(s)	243
LmnI	GCTCC	1 cut(s)	276
Lsp1109I	GCAGC	5 cut(s)	26, 123, 215, 330, 475
LweI	GCATC	2 cut(s)	346, 427
MaeI	CTAG	3 cut(s)	87, 96, 143
MaeII	ACGT	1 cut(s)	8
MaeIII	GTNAC	1 cut(s)	412
MalI	GATC	1 cut(s)	566
MboI	GATC	1 cut(s)	564
MboII	GAAGA	4 cut(s)	94, 260, 283, 374
MfeI	CAATTG	1 cut(s)	184
MhlI	GDGCHC	1 cut(s)	255
MluCI	AATT	5 cut(s)	184, 394, 446, 633, 672
MluI	ACGCGT	1 cut(s)	232
MnlI	CCTC	9 cut(s)	28, 42, 120, 163, 235, 284, 528, 584, 585
MseI	TTAA	4 cut(s)	78, 632, 653, 688
MslI	CAYNNNNRTG	1 cut(s)	266
MspA1I	CMGCKG	1 cut(s)	343
MspI	CCGG	2 cut(s)	53, 519
MspR9I	CCNGG	1 cut(s)	402
MunI	CAATTG	1 cut(s)	184
MvaI	CCWGG	1 cut(s)	402
MvnI	CGCG	2 cut(s)	135, 234
MwoI	GCNNNNNNNGC	1 cut(s)	20
NdeII	GATC	1 cut(s)	564
NlaIII	CATG	3 cut(s)	271, 547, 670
NspI	RCATGY	3 cut(s)	271, 547, 670
NspV	TTCGAA	1 cut(s)	246
PaeI	GCATGC	1 cut(s)	547
PceI	AGGCCT	1 cut(s)	31
PciI	ACATGT	1 cut(s)	666
PciSI	GCTCTTC	1 cut(s)	243
PcsI	WCGNNNNNNNCGW	1 cut(s)	252
PfeI	GAWTC	2 cut(s)	243, 285
Pfl23II	CGTACG	1 cut(s)	9
PflMI	CCANNNNNTGG	1 cut(s)	186
PkrI	GCNGC	5 cut(s)	16, 113, 205, 345, 490
PscI	ACATGT	1 cut(s)	666
Psp124BI	GAGCTC	1 cut(s)	255
Psp6I	CCWGG	1 cut(s)	400
PspGI	CCWGG	1 cut(s)	400
PspLI	CGTACG	1 cut(s)	9
PvuII	CAGCTG	1 cut(s)	343
RsaI	GTAC	2 cut(s)	11, 539
RsaNI	GTAC	2 cut(s)	10, 538
RseI	CAYNNNNRTG	1 cut(s)	266
SacI	GAGCTC	1 cut(s)	255
SapI	GCTCTTC	1 cut(s)	243
SaqAI	TTAA	4 cut(s)	78, 632, 653, 688
SatI	GCNGC	5 cut(s)	15, 112, 204, 344, 489
Sau3AI	GATC	1 cut(s)	564
ScrFI	CCNGG	1 cut(s)	402
SduI	GDGCHC	1 cut(s)	255
SfaNI	GCATC	2 cut(s)	346, 427
SfuI	TTCGAA	1 cut(s)	246
SmiMI	CAYNNNNRTG	1 cut(s)	266
SphI	GCATGC	1 cut(s)	547
Sse9I	AATT	5 cut(s)	184, 394, 446, 633, 672
SseBI	AGGCCT	1 cut(s)	31
SsiI	CCGC	2 cut(s)	323, 419
SspMI	CTAG	3 cut(s)	87, 96, 143
SstI	GAGCTC	1 cut(s)	255
StuI	AGGCCT	1 cut(s)	31
StyD4I	CCNGG	1 cut(s)	400
TaaI	ACNGT	1 cut(s)	472
TaiI	ACGT	1 cut(s)	11
TaqI	TCGA	3 cut(s)	105, 246, 255
TasI	AATT	5 cut(s)	184, 394, 446, 633, 672
TfiI	GAWTC	2 cut(s)	243, 285
Tru1I	TTAA	4 cut(s)	78, 632, 653, 688
Tru9I	TTAA	4 cut(s)	78, 632, 653, 688
TseI	GCWGC	5 cut(s)	14, 111, 203, 343, 488
TspDTI	ATGAA	2 cut(s)	458, 628
TspGWI	ACGGA	1 cut(s)	266
Van91I	CCANNNNNTGG	1 cut(s)	186
XceI	RCATGY	3 cut(s)	271, 547, 670
XcmI	CCANNNNNNNNNTGG	1 cut(s)	575
XspI	CTAG	3 cut(s)	87, 96, 143

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