Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0009609

Physical Location & Seq

Genomic Coordinates Forward (+)

46424051 .. 46429388

Gene Structure 5338 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00252400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGGAGGTGGCCACCGCAGCTTCCAGCTTCGCGCTTCACACGCGCATCTCAGCCGGTCCCCGAGCCCTAAACCCTAACCGCGTCCAAACGATGTCGTCTTGTTCCCCTCTCCGCGCCTCCCTCTCCTCCAACTTCCTCTCGCCCTTCGCCGGCGGCAGCGTCACCTCCGACTTCTCCGGCCACAAGCTCCGCCCTTCCTCTCTCAATCCAGCGCTTTCTCGTGGCTCTAAGCCCAAACGCGGTGTCGTCACCATGGTTATTCCATTTCAAAGGGGAAGTGCATGGGAGCAACCACCTCCAGACCTGGCATCATATCTATACAAGAATCGAATTGTTTTCTTGGGAATGTCGCTTGTTCCTTCAGTAACCGAGTTGATTCTTGCAGAATTTCTCTACCTTCAGTATGAGGACGATACAAAGCCTATCTACTTGTACATAAATTCCACTGGAACTACCAAGGGTGGTGAGAAATTGGGTTACGAGACAGAGGCTCTTGCAATATATGATGTTATGAGGTATGTCAAGCCACCAATATTTACTCTTTGTGTTGGTAATGCTTGGGGAGAAGCCGCTTTACTCTTGGCTGCTGGTGCAAAGGGAAACCGTTCTGCGTTACCCTCATCAACAATCATGATAAAGCAGCCAATTGCAAGGTTCCAAGGTCAAGCAACAGATATTGAACTTGCAAGAAAAGAAGTGAAGAATGTGAAAGACGAGTTGGTCAAGCTCTTTGCTAAGCATGTTGGAAAATCAACTGAGCAAATTGAAGCGGACATTAGACGTCCAAAATATTTTAGTCCCAGCGAGGCAGTTGAATATGGCATCATAGACAAGGTACTGTACAATGAGAGGGGTCATAAAGACAGGGGAGTAGTTGCTGACCTGAAAAAGGCACAGCTTATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006979 GO:0008150 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009941 GO:0010468 GO:0019222 GO:0031967 GO:0031975 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04112 ko04212 map04112 map04212

Pfam Domains

Protein Families

CLP_protease

Protein Analysis

301

Amino Acids

32.97

Weight (kDa)

9.47

Isoelectric Point (pI)

36.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	101 - 281	5.8e-53	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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009609)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G17040
fragaria_vesca	FvH4_5g20310 FvH4_5g20310 FvH4_5g20310
malus_domestica	MD04G1052700.v1.1 MD06G1047500.v1.1
prunus_persica	Prupe.5G057800_v2.0.a1
pyrus_communis	pycom04g04640 pycom06g04040
rosa_chinensis	RchiOBHm_Chr7g0205411
rosa_laevigata	RLG00000003383
rosa_multiflora	Rmu_ssc0000004.1_g000001 Rmu_ssc0000004.1_g000005
rosa_roxburghii	Rroxscaffold_3G00252400
rosa_rugosa	Rorug07G0091100 Rorug07G0091200 Rorug07G0091200
rosa_samantha	Rh7AG221000 Rh7BG217300 Rh7CG234100 Rh7DG228000
rosa_wichuraiana	Rw7G019100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	719
AatII	GACGTC	1 cut(s)	784
AccII	CGCG	5 cut(s)	32, 43, 81, 114, 240
AciI	CCGC	8 cut(s)	15, 79, 112, 153, 190, 240, 570, 770
AcoI	YGGCCR	2 cut(s)	9, 178
AcsI	RAATTY	2 cut(s)	386, 439
AcuI	CTGAAG	2 cut(s)	345, 383
AcyI	GRCGYC	1 cut(s)	781
AfaI	GTAC	3 cut(s)	434, 837, 842
AfeI	AGCGCT	1 cut(s)	213
AfiI	CCNNNNNNNGG	3 cut(s)	149, 239, 889
AgsI	TTSAA	4 cut(s)	269, 680, 767, 815
AjnI	CCWGG	1 cut(s)	303
AjuI	GAANNNNNNNTTGG	2 cut(s)	701, 733
AluBI	AGCT	5 cut(s)	20, 27, 187, 727, 898
AluI	AGCT	5 cut(s)	20, 27, 187, 727, 898
Alw26I	GTCTC	1 cut(s)	476
Ama87I	CYCGRG	1 cut(s)	60
Aor51HI	AGCGCT	1 cut(s)	213
AoxI	GGCC	2 cut(s)	9, 178
ApeKI	GCWGC	4 cut(s)	17, 156, 584, 640
ApoI	RAATTY	2 cut(s)	386, 439
ArsI	GACNNNNNNTTYG	2 cut(s)	228, 260
Asp700I	GAANNNNTTC	1 cut(s)	604
AspLEI	GCGC	4 cut(s)	34, 45, 116, 214
AspS9I	GGNCC	1 cut(s)	56
AsuHPI	GGTGA	3 cut(s)	154, 241, 476
AvaI	CYCGRG	1 cut(s)	60
AvaII	GGWCC	1 cut(s)	56
BalI	TGGCCA	1 cut(s)	11
BanII	GRGCYC	1 cut(s)	67
BarI	GAAGNNNNNNTAC	2 cut(s)	558, 590
BauI	CACGAG	1 cut(s)	219
BbvI	GCAGC	4 cut(s)	29, 168, 571, 652
BciT130I	CCWGG	1 cut(s)	305
BcoDI	GTCTC	1 cut(s)	476
BfoI	RGCGCY	1 cut(s)	215
BisI	GCNGC	6 cut(s)	18, 154, 157, 570, 585, 641
BlpI	GCTNAGC	1 cut(s)	735
BlsI	GCNGC	6 cut(s)	19, 155, 158, 571, 586, 642
Bme1390I	CCNGG	1 cut(s)	305
Bme18I	GGWCC	1 cut(s)	56
BmeT110I	CYCGRG	1 cut(s)	60
BmgT120I	GGNCC	1 cut(s)	56
BmiI	GGNNCC	2 cut(s)	58, 656
BmrFI	CCNGG	1 cut(s)	305
BmsI	GCATC	3 cut(s)	54, 317, 831
BpmI	CTGGAG	1 cut(s)	282
Bpu1102I	GCTNAGC	1 cut(s)	735
BsaHI	GRCGYC	1 cut(s)	781
BsaJI	CCNNGG	3 cut(s)	252, 456, 658
Bsc4I	CCNNNNNNNGG	3 cut(s)	149, 239, 889
Bse118I	RCCGGY	2 cut(s)	53, 149
Bse1I	ACTGG	1 cut(s)	451
BseBI	CCWGG	1 cut(s)	305
BseDI	CCNNGG	3 cut(s)	252, 456, 658
BseLI	CCNNNNNNNGG	3 cut(s)	149, 239, 889
BseMII	CTCAG	2 cut(s)	63, 747
BseNI	ACTGG	1 cut(s)	451
BseRI	GAGGAG	1 cut(s)	115
BseXI	GCAGC	4 cut(s)	29, 168, 571, 652
BseYI	CCCAGC	1 cut(s)	800
Bsh1236I	CGCG	5 cut(s)	32, 43, 81, 114, 240
BshFI	GGCC	2 cut(s)	11, 180
BsiHKCI	CYCGRG	1 cut(s)	60
BsiSI	CCGG	3 cut(s)	54, 150, 177
BslFI	GGGAC	2 cut(s)	42, 783
BslI	CCNNNNNNNGG	3 cut(s)	149, 239, 889
BsmAI	GTCTC	1 cut(s)	476
BsmFI	GGGAC	2 cut(s)	42, 783
BsnI	GGCC	2 cut(s)	11, 180
BsoBI	CYCGRG	1 cut(s)	60
Bsp1286I	GDGCHC	1 cut(s)	67
Bsp1407I	TGTACA	2 cut(s)	432, 840
Bsp1720I	GCTNAGC	1 cut(s)	735
Bsp19I	CCATGG	1 cut(s)	252
BspACI	CCGC	8 cut(s)	15, 79, 112, 153, 190, 240, 570, 770
BspANI	GGCC	2 cut(s)	11, 180
BspCNI	CTCAG	2 cut(s)	62, 748
BspFNI	CGCG	5 cut(s)	32, 43, 81, 114, 240
BspHI	TCATGA	1 cut(s)	630
BspLI	GGNNCC	2 cut(s)	58, 656
BsrFI	RCCGGY	2 cut(s)	53, 149
BsrGI	TGTACA	2 cut(s)	432, 840
BsrI	ACTGG	1 cut(s)	451
BssAI	RCCGGY	2 cut(s)	53, 149
BssECI	CCNNGG	3 cut(s)	252, 456, 658
BssNI	GRCGYC	1 cut(s)	781
BssSI	CACGAG	1 cut(s)	219
BssT1I	CCWWGG	3 cut(s)	252, 456, 658
Bst2BI	CACGAG	1 cut(s)	219
Bst2UI	CCWGG	1 cut(s)	305
Bst4CI	ACNGT	2 cut(s)	605, 840
BstACI	GRCGYC	1 cut(s)	781
BstAUI	TGTACA	2 cut(s)	432, 840
BstC8I	GCNNGC	1 cut(s)	151
BstDEI	CTNAG	4 cut(s)	49, 228, 735, 756
BstDSI	CCRYGG	1 cut(s)	252
BstENI	CCTNNNNNAGG	1 cut(s)	887
BstFNI	CGCG	5 cut(s)	32, 43, 81, 114, 240
BstH2I	RGCGCY	1 cut(s)	215
BstHHI	GCGC	4 cut(s)	34, 45, 116, 214
BstMAI	GTCTC	1 cut(s)	476
BstMWI	GCNNNNNNNGC	3 cut(s)	17, 40, 590
BstNI	CCWGG	1 cut(s)	305
BstNSI	RCATGY	1 cut(s)	743
BstSCI	CCNGG	1 cut(s)	303
BstUI	CGCG	5 cut(s)	32, 43, 81, 114, 240
BstV1I	GCAGC	4 cut(s)	29, 168, 571, 652
BsuRI	GGCC	2 cut(s)	11, 180
BtgI	CCRYGG	1 cut(s)	252
BtsIMutI	CAGTG	1 cut(s)	444
Cac8I	GCNNGC	1 cut(s)	151
CciI	TCATGA	1 cut(s)	630
CfoI	GCGC	4 cut(s)	34, 45, 116, 214
Cfr10I	RCCGGY	2 cut(s)	53, 149
Cfr13I	GGNCC	1 cut(s)	56
CseI	GACGC	2 cut(s)	70, 148
Csp6I	GTAC	3 cut(s)	433, 836, 841
CviAII	CATG	4 cut(s)	253, 282, 631, 740
CviQI	GTAC	3 cut(s)	433, 836, 841
DdeI	CTNAG	4 cut(s)	49, 228, 735, 756
DrdI	GACNNNNNNGTC	1 cut(s)	719
DseDI	GACNNNNNNGTC	1 cut(s)	719
EaeI	YGGCCR	2 cut(s)	9, 178
EciI	GGCGGA	1 cut(s)	179
Eco130I	CCWWGG	3 cut(s)	252, 456, 658
Eco24I	GRGCYC	1 cut(s)	67
Eco47I	GGWCC	1 cut(s)	56
Eco47III	AGCGCT	1 cut(s)	213
Eco57I	CTGAAG	2 cut(s)	345, 383
Eco88I	CYCGRG	1 cut(s)	60
EcoNI	CCTNNNNNAGG	1 cut(s)	887
EcoRII	CCWGG	1 cut(s)	303
EcoT14I	CCWWGG	3 cut(s)	252, 456, 658
EcoT38I	GRGCYC	1 cut(s)	67
ErhI	CCWWGG	3 cut(s)	252, 456, 658
FaeI	CATG	4 cut(s)	256, 285, 634, 743
FaqI	GGGAC	2 cut(s)	42, 783
FatI	CATG	4 cut(s)	252, 281, 630, 739
Fnu4HI	GCNGC	6 cut(s)	18, 154, 157, 570, 585, 641
FriOI	GRGCYC	1 cut(s)	67
Fsp4HI	GCNGC	6 cut(s)	18, 154, 157, 570, 585, 641
GlaI	GCGC	4 cut(s)	33, 44, 115, 213
GluI	GCNGC	6 cut(s)	18, 154, 157, 570, 585, 641
GsaI	CCCAGC	1 cut(s)	804
GsuI	CTGGAG	1 cut(s)	282
HaeII	RGCGCY	1 cut(s)	215
HaeIII	GGCC	2 cut(s)	11, 180
HapII	CCGG	3 cut(s)	54, 150, 177
HgaI	GACGC	2 cut(s)	70, 148
HhaI	GCGC	4 cut(s)	34, 45, 116, 214
Hin1I	GRCGYC	1 cut(s)	781
Hin1II	CATG	4 cut(s)	256, 285, 634, 743
Hin6I	GCGC	4 cut(s)	32, 43, 114, 212
HinP1I	GCGC	4 cut(s)	32, 43, 114, 212
HinfI	GANTC	2 cut(s)	325, 376
HpaII	CCGG	3 cut(s)	54, 150, 177
HphI	GGTGA	3 cut(s)	154, 241, 476
Hpy188I	TCNGA	1 cut(s)	169
Hpy188III	TCNNGA	2 cut(s)	299, 631
HpyAV	CCTTC	4 cut(s)	154, 204, 369, 407
HpyCH4III	ACNGT	2 cut(s)	605, 840
HpyCH4IV	ACGT	1 cut(s)	781
HpyCH4V	TGCA	6 cut(s)	281, 383, 497, 593, 650, 686
HpyF10VI	GCNNNNNNNGC	3 cut(s)	17, 40, 590
HpyF3I	CTNAG	4 cut(s)	49, 228, 735, 756
HpySE526I	ACGT	1 cut(s)	781
Hsp92I	GRCGYC	1 cut(s)	781
Hsp92II	CATG	4 cut(s)	256, 285, 634, 743
HspAI	GCGC	4 cut(s)	32, 43, 114, 212
KroI	GCCGGC	1 cut(s)	149
KroNI	GCCGGC	1 cut(s)	151
LmnI	GCTCC	2 cut(s)	192, 286
Lsp1109I	GCAGC	4 cut(s)	29, 168, 571, 652
LweI	GCATC	3 cut(s)	54, 317, 831
MaeII	ACGT	1 cut(s)	781
MaeIII	GTNAC	5 cut(s)	160, 247, 364, 476, 612
MboII	GAAGA	1 cut(s)	712
MfeI	CAATTG	1 cut(s)	645
MhlI	GDGCHC	1 cut(s)	67
MlsI	TGGCCA	1 cut(s)	11
MluCI	AATT	6 cut(s)	330, 386, 439, 470, 645, 762
MluNI	TGGCCA	1 cut(s)	11
MmeI	TCCRAC	3 cut(s)	153, 192, 724
Mox20I	TGGCCA	1 cut(s)	11
MreI	CGCCGGCG	1 cut(s)	149
MroNI	GCCGGC	1 cut(s)	149
MroXI	GAANNNNTTC	1 cut(s)	604
MscI	TGGCCA	1 cut(s)	11
Msp20I	TGGCCA	1 cut(s)	11
MspI	CCGG	3 cut(s)	54, 150, 177
MspR9I	CCNGG	1 cut(s)	305
MunI	CAATTG	1 cut(s)	645
MvaI	CCWGG	1 cut(s)	305
MvnI	CGCG	5 cut(s)	32, 43, 81, 114, 240
MwoI	GCNNNNNNNGC	3 cut(s)	17, 40, 590
NaeI	GCCGGC	1 cut(s)	151
NcoI	CCATGG	1 cut(s)	252
NgoMIV	GCCGGC	1 cut(s)	149
NlaIII	CATG	4 cut(s)	256, 285, 634, 743
NlaIV	GGNNCC	2 cut(s)	58, 656
NmuCI	GTSAC	2 cut(s)	160, 247
NspI	RCATGY	1 cut(s)	743
PagI	TCATGA	1 cut(s)	630
PdiI	GCCGGC	1 cut(s)	151
PdmI	GAANNNNTTC	1 cut(s)	604
PfeI	GAWTC	2 cut(s)	325, 376
PkrI	GCNGC	6 cut(s)	19, 155, 158, 571, 586, 642
Psp6I	CCWGG	1 cut(s)	303
PspFI	CCCAGC	1 cut(s)	800
PspGI	CCWGG	1 cut(s)	303
PspN4I	GGNNCC	2 cut(s)	58, 656
PspPI	GGNCC	1 cut(s)	56
RsaI	GTAC	3 cut(s)	434, 837, 842
RsaNI	GTAC	3 cut(s)	433, 836, 841
SatI	GCNGC	6 cut(s)	18, 154, 157, 570, 585, 641
Sau96I	GGNCC	1 cut(s)	56
ScrFI	CCNGG	1 cut(s)	305
SduI	GDGCHC	1 cut(s)	67
SfaNI	GCATC	3 cut(s)	54, 317, 831
SgrAI	CRCCGGYG	1 cut(s)	149
SinI	GGWCC	1 cut(s)	56
Sse9I	AATT	6 cut(s)	330, 386, 439, 470, 645, 762
SsiI	CCGC	8 cut(s)	15, 79, 112, 153, 190, 240, 570, 770
SspI	AATATT	2 cut(s)	534, 791
StyD4I	CCNGG	1 cut(s)	303
StyI	CCWWGG	3 cut(s)	252, 456, 658
TaaI	ACNGT	2 cut(s)	605, 840
TaiI	ACGT	1 cut(s)	784
TaqI	TCGA	1 cut(s)	328
TasI	AATT	6 cut(s)	330, 386, 439, 470, 645, 762
TatI	WGTACW	2 cut(s)	432, 840
TauI	GCSGC	2 cut(s)	156, 572
TfiI	GAWTC	2 cut(s)	325, 376
TscAI	CASTG	1 cut(s)	451
TseFI	GTSAC	2 cut(s)	160, 247
TseI	GCWGC	4 cut(s)	17, 156, 584, 640
Tsp45I	GTSAC	2 cut(s)	160, 247
TspRI	CASTG	1 cut(s)	451
VpaK11BI	GGWCC	1 cut(s)	56
XagI	CCTNNNNNAGG	1 cut(s)	887
XapI	RAATTY	2 cut(s)	386, 439
XceI	RCATGY	1 cut(s)	743
XmnI	GAANNNNTTC	1 cut(s)	604
ZraI	GACGTC	1 cut(s)	782

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