Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0009609

Physical Location & Seq

Genomic Coordinates Forward (+)

47858179 .. 47863253

Gene Structure 5075 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000003383

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGGAGGTGGCCACCGCAGCTTCCAGCTTCGCGCTTCACACGCGCATCCCAGCCGCTCCCCGAGCGCTAAACCCTAACCGCATCCAAACGATGTCGTCTTGCTCCCCTCTCCGAGCCTCCCTCTCCTCCAACTTCCTCTCGCCCTTCGCCGGCGGCAGCGTCACCTCCGACTTCTCCGGCCACAGGTTCCGCCCTTCCTCTCTCAATCCGGCGCTTTCTCGTGGCTCTAAGCCCAAACGCGGTGTCGTCACCATGGTTATTCCATTTCAAAGGGGAAGTGCATGGGAGCAACCACCTCCAGACCTGGCATCATATCTATACAAGAATCGAATTGTTTACTTGGGAATGTCGCTTGTTCCTTCAGTAACAGAGTTGATTCTTGCAGAATTTCTCTACCTTCAGTATGAGGACGATACAAAGCCTATCTACTTGTACATAAATTCCACTGGAACTACCAAGGGTGGTGAGAAATTGGGTTATGAGACAGAGGCTCTTGCAATATATGATGTCATGAGGTATGTCAAGCCACCAATATTTACTCTTTGTGTTGGTAATGCTTGGGGAGAAGCTGCTTTACTATTGGCTGCTGGTGCAAAGGGAAACCGTTCTGCGTTACCCTCATCAACAATCATGATAAAGCAGCCAATTGCAAGGTTCCAAGGTCAAGCAACAGATATTGAACTTGCAAGAAAAGAAGTGAAGAATGTGAAAGACGAGTTGGTCAAGCTCTTTGCTAAGCATGTTGGAAAATCGACTGAGCAAATTGAAGCGGACATTAGACGTCCAAAATATTTTAGTCCCAGCGAGGCAGTTGAATATGGCATCATAGACAAGGTACTGTACAATGAGAGGGGAAGACTTGGAATGATTACTGGAATTAACACTCAGATGCAAGTTTATGAGATGACTGGCTTCTTCAGTACTGGAGCAAGAGTTTGCACACCATTCACAAAAAAAAGTGTTAAAGCCGCAAGCGGTACACAAAAGTGCAGCAAAGGAAGTCCATTATATATGCCTTAA

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

340

Amino Acids

37.13

Weight (kDa)

9.56

Isoelectric Point (pI)

35.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	101 - 281	3.7e-52	Clp protease

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

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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
AccBSI	CCGCTC	1 cut(s)	56
AccII	CGCG	3 cut(s)	32, 43, 240
AciI	CCGC	9 cut(s)	15, 54, 79, 153, 190, 240, 770, 969, 975
AcoI	YGGCCR	2 cut(s)	9, 178
AcsI	RAATTY	2 cut(s)	386, 439
AcuI	CTGAAG	3 cut(s)	345, 383, 901
AcyI	GRCGYC	1 cut(s)	781
AfaI	GTAC	5 cut(s)	434, 837, 842, 922, 979
AfeI	AGCGCT	1 cut(s)	66
AfiI	CCNNNNNNNGG	3 cut(s)	149, 183, 239
AgsI	TTSAA	4 cut(s)	269, 680, 767, 815
AjnI	CCWGG	1 cut(s)	303
AjuI	GAANNNNNNNTTGG	2 cut(s)	701, 733
AleI	CACNNNNGTG	1 cut(s)	985
AluBI	AGCT	4 cut(s)	20, 27, 569, 727
AluI	AGCT	4 cut(s)	20, 27, 569, 727
Alw26I	GTCTC	1 cut(s)	476
Ama87I	CYCGRG	1 cut(s)	60
Aor51HI	AGCGCT	1 cut(s)	66
AoxI	GGCC	2 cut(s)	9, 178
ApeKI	GCWGC	6 cut(s)	17, 156, 569, 584, 640, 990
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, 67, 214
AsuHPI	GGTGA	3 cut(s)	154, 241, 476
AvaI	CYCGRG	1 cut(s)	60
BalI	TGGCCA	1 cut(s)	11
BarI	GAAGNNNNNNTAC	2 cut(s)	558, 590
BauI	CACGAG	1 cut(s)	219
BbsI	GAAGAC	1 cut(s)	862
BbvI	GCAGC	6 cut(s)	29, 168, 556, 571, 652, 1002
BciT130I	CCWGG	1 cut(s)	305
BcoDI	GTCTC	1 cut(s)	476
BfoI	RGCGCY	2 cut(s)	68, 215
BisI	GCNGC	9 cut(s)	18, 54, 154, 157, 570, 585, 641, 969, 991
BlpI	GCTNAGC	1 cut(s)	735
BlsI	GCNGC	9 cut(s)	19, 55, 155, 158, 571, 586, 642, 970, 992
BmcAI	AGTACT	1 cut(s)	922
Bme1390I	CCNGG	1 cut(s)	305
BmeT110I	CYCGRG	1 cut(s)	60
BmiI	GGNNCC	2 cut(s)	188, 656
BmrFI	CCNGG	1 cut(s)	305
BmsI	GCATC	5 cut(s)	54, 90, 317, 831, 879
BpiI	GAAGAC	1 cut(s)	862
BplI	GAGNNNNNCTC	2 cut(s)	105, 137
BpmI	CTGGAG	2 cut(s)	282, 945
Bpu1102I	GCTNAGC	1 cut(s)	735
BsaHI	GRCGYC	1 cut(s)	781
BsaJI	CCNNGG	3 cut(s)	252, 456, 658
BsaXI	ACNNNNNCTCC	2 cut(s)	918, 948
Bsc4I	CCNNNNNNNGG	3 cut(s)	149, 183, 239
Bse118I	RCCGGY	1 cut(s)	149
Bse1I	ACTGG	4 cut(s)	451, 877, 913, 928
BseBI	CCWGG	1 cut(s)	305
BseDI	CCNNGG	3 cut(s)	252, 456, 658
BseGI	GGATG	2 cut(s)	45, 81
BseLI	CCNNNNNNNGG	3 cut(s)	149, 183, 239
BseMII	CTCAG	2 cut(s)	747, 899
BseNI	ACTGG	4 cut(s)	451, 877, 913, 928
BseRI	GAGGAG	1 cut(s)	115
BseXI	GCAGC	6 cut(s)	29, 168, 556, 571, 652, 1002
BseYI	CCCAGC	2 cut(s)	49, 800
BsgI	GTGCAG	1 cut(s)	1009
Bsh1236I	CGCG	3 cut(s)	32, 43, 240
BshFI	GGCC	2 cut(s)	11, 180
BsiHKCI	CYCGRG	1 cut(s)	60
BsiSI	CCGG	3 cut(s)	150, 177, 209
BslFI	GGGAC	1 cut(s)	783
BslI	CCNNNNNNNGG	3 cut(s)	149, 183, 239
BsmAI	GTCTC	1 cut(s)	476
BsmFI	GGGAC	1 cut(s)	783
BsnI	GGCC	2 cut(s)	11, 180
BsoBI	CYCGRG	1 cut(s)	60
Bsp1407I	TGTACA	2 cut(s)	432, 840
Bsp1720I	GCTNAGC	1 cut(s)	735
Bsp19I	CCATGG	1 cut(s)	252
BspACI	CCGC	9 cut(s)	15, 54, 79, 153, 190, 240, 770, 969, 975
BspANI	GGCC	2 cut(s)	11, 180
BspCNI	CTCAG	2 cut(s)	748, 898
BspFNI	CGCG	3 cut(s)	32, 43, 240
BspHI	TCATGA	2 cut(s)	510, 630
BspLI	GGNNCC	2 cut(s)	188, 656
BsrBI	CCGCTC	1 cut(s)	56
BsrFI	RCCGGY	1 cut(s)	149
BsrGI	TGTACA	2 cut(s)	432, 840
BsrI	ACTGG	4 cut(s)	451, 877, 913, 928
BssAI	RCCGGY	1 cut(s)	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	2 cut(s)	151, 973
BstDEI	CTNAG	4 cut(s)	228, 735, 756, 885
BstDSI	CCRYGG	1 cut(s)	252
BstF5I	GGATG	2 cut(s)	45, 81
BstFNI	CGCG	3 cut(s)	32, 43, 240
BstH2I	RGCGCY	2 cut(s)	68, 215
BstHHI	GCGC	4 cut(s)	34, 45, 67, 214
BstMAI	GTCTC	1 cut(s)	476
BstMWI	GCNNNNNNNGC	4 cut(s)	17, 40, 62, 590
BstNI	CCWGG	1 cut(s)	305
BstNSI	RCATGY	1 cut(s)	743
BstSCI	CCNGG	1 cut(s)	303
BstUI	CGCG	3 cut(s)	32, 43, 240
BstV1I	GCAGC	6 cut(s)	29, 168, 556, 571, 652, 1002
BstV2I	GAAGAC	1 cut(s)	862
BsuRI	GGCC	2 cut(s)	11, 180
BtgI	CCRYGG	1 cut(s)	252
BtsCI	GGATG	2 cut(s)	45, 81
BtsIMutI	CAGTG	1 cut(s)	444
Cac8I	GCNNGC	2 cut(s)	151, 973
CciI	TCATGA	2 cut(s)	510, 630
CfoI	GCGC	4 cut(s)	34, 45, 67, 214
Cfr10I	RCCGGY	1 cut(s)	149
CseI	GACGC	1 cut(s)	148
Csp6I	GTAC	5 cut(s)	433, 836, 841, 921, 978
CviAII	CATG	5 cut(s)	253, 282, 511, 631, 740
CviQI	GTAC	5 cut(s)	433, 836, 841, 921, 978
DdeI	CTNAG	4 cut(s)	228, 735, 756, 885
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
Eco47III	AGCGCT	1 cut(s)	66
Eco57I	CTGAAG	3 cut(s)	345, 383, 901
Eco88I	CYCGRG	1 cut(s)	60
EcoRII	CCWGG	1 cut(s)	303
EcoT14I	CCWWGG	3 cut(s)	252, 456, 658
ErhI	CCWWGG	3 cut(s)	252, 456, 658
FaeI	CATG	5 cut(s)	256, 285, 514, 634, 743
FaqI	GGGAC	1 cut(s)	783
FatI	CATG	5 cut(s)	252, 281, 510, 630, 739
Fnu4HI	GCNGC	9 cut(s)	18, 54, 154, 157, 570, 585, 641, 969, 991
FokI	GGATG	2 cut(s)	32, 68
Fsp4HI	GCNGC	9 cut(s)	18, 54, 154, 157, 570, 585, 641, 969, 991
GlaI	GCGC	4 cut(s)	33, 44, 66, 213
GluI	GCNGC	9 cut(s)	18, 54, 154, 157, 570, 585, 641, 969, 991
GsaI	CCCAGC	2 cut(s)	53, 804
GsuI	CTGGAG	2 cut(s)	282, 945
HaeII	RGCGCY	2 cut(s)	68, 215
HaeIII	GGCC	2 cut(s)	11, 180
HapII	CCGG	3 cut(s)	150, 177, 209
HgaI	GACGC	1 cut(s)	148
HhaI	GCGC	4 cut(s)	34, 45, 67, 214
Hin1I	GRCGYC	1 cut(s)	781
Hin1II	CATG	5 cut(s)	256, 285, 514, 634, 743
Hin6I	GCGC	4 cut(s)	32, 43, 65, 212
HinP1I	GCGC	4 cut(s)	32, 43, 65, 212
HinfI	GANTC	2 cut(s)	325, 376
HpaII	CCGG	3 cut(s)	150, 177, 209
HphI	GGTGA	3 cut(s)	154, 241, 476
Hpy166II	GTNNAC	2 cut(s)	337, 980
Hpy188I	TCNGA	3 cut(s)	113, 169, 888
Hpy188III	TCNNGA	3 cut(s)	299, 511, 631
Hpy8I	GTNNAC	2 cut(s)	337, 980
HpyAV	CCTTC	4 cut(s)	154, 204, 369, 407
HpyCH4III	ACNGT	2 cut(s)	605, 840
HpyCH4IV	ACGT	1 cut(s)	781
HpyCH4V	TGCA	9 cut(s)	281, 383, 497, 593, 650, 686, 892, 939, 990
HpyF10VI	GCNNNNNNNGC	4 cut(s)	17, 40, 62, 590
HpyF3I	CTNAG	4 cut(s)	228, 735, 756, 885
HpySE526I	ACGT	1 cut(s)	781
Hsp92I	GRCGYC	1 cut(s)	781
Hsp92II	CATG	5 cut(s)	256, 285, 514, 634, 743
HspAI	GCGC	4 cut(s)	32, 43, 65, 212
KroI	GCCGGC	1 cut(s)	149
KroNI	GCCGGC	1 cut(s)	151
LmnI	GCTCC	4 cut(s)	61, 107, 286, 926
Lsp1109I	GCAGC	6 cut(s)	29, 168, 556, 571, 652, 1002
LweI	GCATC	5 cut(s)	54, 90, 317, 831, 879
MaeII	ACGT	1 cut(s)	781
MaeIII	GTNAC	4 cut(s)	160, 247, 364, 612
MbiI	CCGCTC	1 cut(s)	56
MboII	GAAGA	3 cut(s)	712, 867, 907
MfeI	CAATTG	1 cut(s)	645
MlsI	TGGCCA	1 cut(s)	11
MluCI	AATT	7 cut(s)	330, 386, 439, 470, 645, 762, 876
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
MseI	TTAA	3 cut(s)	879, 963, 1018
MslI	CAYNNNNRTG	2 cut(s)	887, 985
Msp20I	TGGCCA	1 cut(s)	11
MspI	CCGG	3 cut(s)	150, 177, 209
MspR9I	CCNGG	1 cut(s)	305
MunI	CAATTG	1 cut(s)	645
MvaI	CCWGG	1 cut(s)	305
MvnI	CGCG	3 cut(s)	32, 43, 240
MwoI	GCNNNNNNNGC	4 cut(s)	17, 40, 62, 590
NaeI	GCCGGC	1 cut(s)	151
NcoI	CCATGG	1 cut(s)	252
NgoMIV	GCCGGC	1 cut(s)	149
NlaIII	CATG	5 cut(s)	256, 285, 514, 634, 743
NlaIV	GGNNCC	2 cut(s)	188, 656
NmuCI	GTSAC	2 cut(s)	160, 247
NspI	RCATGY	1 cut(s)	743
OliI	CACNNNNGTG	1 cut(s)	985
PagI	TCATGA	2 cut(s)	510, 630
PdiI	GCCGGC	1 cut(s)	151
PdmI	GAANNNNTTC	1 cut(s)	604
PfeI	GAWTC	2 cut(s)	325, 376
PkrI	GCNGC	9 cut(s)	19, 55, 155, 158, 571, 586, 642, 970, 992
Psp6I	CCWGG	1 cut(s)	303
PspFI	CCCAGC	2 cut(s)	49, 800
PspGI	CCWGG	1 cut(s)	303
PspN4I	GGNNCC	2 cut(s)	188, 656
RsaI	GTAC	5 cut(s)	434, 837, 842, 922, 979
RsaNI	GTAC	5 cut(s)	433, 836, 841, 921, 978
RseI	CAYNNNNRTG	2 cut(s)	887, 985
SaqAI	TTAA	3 cut(s)	879, 963, 1018
SatI	GCNGC	9 cut(s)	18, 54, 154, 157, 570, 585, 641, 969, 991
ScaI	AGTACT	1 cut(s)	922
ScrFI	CCNGG	1 cut(s)	305
SfaNI	GCATC	5 cut(s)	54, 90, 317, 831, 879
SgrAI	CRCCGGYG	1 cut(s)	149
SmiMI	CAYNNNNRTG	2 cut(s)	887, 985
Sse9I	AATT	7 cut(s)	330, 386, 439, 470, 645, 762, 876
SsiI	CCGC	9 cut(s)	15, 54, 79, 153, 190, 240, 770, 969, 975
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	2 cut(s)	328, 752
TasI	AATT	7 cut(s)	330, 386, 439, 470, 645, 762, 876
TatI	WGTACW	3 cut(s)	432, 840, 920
TauI	GCSGC	3 cut(s)	56, 156, 971
TfiI	GAWTC	2 cut(s)	325, 376
Tru1I	TTAA	3 cut(s)	879, 963, 1018
Tru9I	TTAA	3 cut(s)	879, 963, 1018
TscAI	CASTG	1 cut(s)	451
TseFI	GTSAC	2 cut(s)	160, 247
TseI	GCWGC	6 cut(s)	17, 156, 569, 584, 640, 990
Tsp45I	GTSAC	2 cut(s)	160, 247
TspRI	CASTG	1 cut(s)	451
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
ZrmI	AGTACT	1 cut(s)	922

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