Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008574

Physical Location & Seq

Genomic Coordinates Forward (+)

53728923 .. 53739149

Gene Structure 10227 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG335000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1461 bp

ATGGAAGAGTCAAATGAAGTTCATTCAGAGGAGAATAAAACTTCCTTTGATAATAAGAAAAGAGTACTTAAGACACCAGCCCAGCTTATGGCTTTGGAGAAATTTTATAATGAGCATAAGTATCCTACAGAGGAAATGAAATCACAACTCGCTGAGGAGTTGGGATTGTCAGAAAAGCAGATATCTGGATGGTTTTGCCACAGAAGGTTAAAAGACAAAAGATTGTCTAGAGATGAAACATATGCTAATGGACGGCAAGATCGTTCAAGTGGTGTTATTCAGGATCGCGCTAGTGGACTTGGGCAAGACTCATGTGGTAGCACTAAACATGGAGACTACAGGTATGTTGATCCTAGGGAGGTTGAAAGTCGGAGGCTTTCTGGGTATGATTTCCCACCCGCAGATCTCACTCGTGAGCATCGGATTCATTATACCGAAAGAGTTAGCATGGATAATACATCTTCAGAAAGTAGCTCATCTTTACAAGATAGGTTTCTTACTCAAACTGAAGATCCATATGATATGGAAACATCTAGATACGTAACAGATAATGGGGTCTTTTCACCCTTAAATACGAAAGGCGCAGAAAACATGGGATATAAGCCCTCAGGGTATTTGAAAGTCAAAGGCGAACTAGAAAATGCTGCTATTACAGCTGTTAAGAGGCAACTTGGGAGGCATTTTCGGGAGGATGGTCCTCCATTAGGTGTAGAATTTGATCCACTTCCTCCTGGTGCATTTGAATCCCCGATTATGGATCCAGTGCAAGAACCATCAATTGGTGGGGATGCTGCTGGTCTTGATTCCCCTGACACATCTGGAGTAAAAAGGCAACCAAGTCCAAGCACTAGATATGAAGTATATAATTCCAAGTTGAGTTCCCAGGGTTTGTATATGCACCAGGAAAATCGTGGTATAATGCATGGGGTTGATATGGTGGAGAGGAAATCTCGCAAGCAATTGAGGCAAAAGTCCACTTATCTTAAAGATATCAATTCTTCTGCTGGCAAAAACTCTTCCTTGGATATGTATGATGCATTTCCTGGAGGAATGTCTGCTTATAATGGCAATAGGAAGAACAGAATGAGCTCTAAGCATGGCCACCGTGGTAGGAAAATCACTAGTGAGACAACAGAGCCATGGTCAAATGAGTCCGATAAAGTTTGTAGTCCCAACATTGGCCAAAGAAGCGATTACTTTAAGTCAAAGGCTTTAAATTCTGTAGTTAAGCATTCCGAAACTCATGACACAGAGAGAGGACTATTTACAATTATCCCACGGGAGGAGAAAGTTGATGGAGAATGTAAGGCAGTCAAAGATTATCACAATCCACTTAGAGTAACGATGACAGATGAAGTGGCGGTTGGAAAACAAGGCAGAGTTAATTTCCCTCACCAAGACTATGCAACAAGTGTGCCGTTTTCTCAAATTCCAGAGCGTAAAAATCAGATTAAAGGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Homeobox

Protein Analysis

486

Amino Acids

54.93

Weight (kDa)

7.26

Isoelectric Point (pI)

57.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Homeodomain	PF00046	19 - 74	1.4e-17	Homeodomain
Homeobox_KN	PF05920	39 - 69	1.5e-07	Homeobox KN domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0008574)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G03250
fragaria_vesca	FvH4_3g27990 FvH4_3g27990 FvH4_3g27990 FvH4_3g27990
malus_domestica	MD03G1167600.v1.1 MD11G1186500.v1.1
prunus_persica	Prupe.4G267700_v2.0.a1 Prupe.4G267700_v2.0.a1
pyrus_communis	pycom03g12280 pycom11g16120
rosa_chinensis	RchiOBHm_Chr5g0050681
rosa_laevigata	RLG00000034723
rosa_multiflora	Rmu_sc0007911.1_g000002 Rmu_ssc0000350.1_g000043
rosa_roxburghii	Rroxscaffold_1G00030120
rosa_rugosa	Rorug05G0263100 Rorug05G0263200
rosa_samantha	Rh5AG335000 Rh5BG344300 Rh5CG372400 Rh5DG357500
rosa_wichuraiana	Rw5G031610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	108, 1062
AccB7I	CCANNNNNTGG	2 cut(s)	88, 779
AccII	CGCG	1 cut(s)	288
AciI	CCGC	2 cut(s)	399, 1361
AclWI	GGATC	6 cut(s)	291, 344, 506, 713, 752, 765
AcoI	YGGCCR	2 cut(s)	1099, 1180
AcsI	RAATTY	4 cut(s)	101, 713, 1216, 1428
AcuI	CTGAAG	2 cut(s)	447, 528
AfaI	GTAC	1 cut(s)	66
AfiI	CCNNNNNNNGG	6 cut(s)	88, 704, 754, 779, 1178, 1282
AflII	CTTAAG	1 cut(s)	68
AgsI	TTSAA	4 cut(s)	267, 365, 619, 743
AhlI	ACTAGT	1 cut(s)	1121
AjnI	CCWGG	4 cut(s)	730, 882, 900, 1042
AjuI	GAANNNNNNNTTGG	4 cut(s)	762, 794, 1347, 1379
AluBI	AGCT	4 cut(s)	85, 474, 656, 1089
AluI	AGCT	4 cut(s)	85, 474, 656, 1089
Alw21I	GWGCWC	1 cut(s)	1091
Alw26I	GTCTC	2 cut(s)	327, 1121
AlwI	GGATC	6 cut(s)	291, 344, 506, 713, 752, 765
AoxI	GGCC	2 cut(s)	1099, 1180
ApeKI	GCWGC	2 cut(s)	644, 791
ApoI	RAATTY	4 cut(s)	101, 713, 1216, 1428
AspA2I	CCTAGG	1 cut(s)	353
AspLEI	GCGC	2 cut(s)	290, 584
AspS9I	GGNCC	1 cut(s)	695
AsuHPI	GGTGA	2 cut(s)	555, 1385
AvaII	GGWCC	1 cut(s)	695
AvrII	CCTAGG	1 cut(s)	353
AxyI	CCTNAGG	1 cut(s)	607
BalI	TGGCCA	2 cut(s)	1101, 1182
BamHI	GGATCC	1 cut(s)	757
BanII	GRGCYC	1 cut(s)	1091
BauI	CACGAG	1 cut(s)	411
Bbv12I	GWGCWC	1 cut(s)	1091
BbvCI	CCTCAGC	1 cut(s)	153
BbvI	GCAGC	2 cut(s)	631, 778
BccI	CCATC	4 cut(s)	183, 686, 781, 1289
BceAI	ACGGC	2 cut(s)	269, 1402
BciT130I	CCWGG	4 cut(s)	732, 884, 902, 1044
BciVI	GTATCC	1 cut(s)	132
BcoDI	GTCTC	2 cut(s)	327, 1121
BcuI	ACTAGT	1 cut(s)	1121
BfaI	CTAG	7 cut(s)	228, 291, 354, 534, 635, 849, 1122
BfmI	CTRYAG	3 cut(s)	126, 337, 1221
BfrI	CTTAAG	1 cut(s)	68
BfuI	GTATCC	1 cut(s)	132
BglII	AGATCT	1 cut(s)	403
BisI	GCNGC	2 cut(s)	645, 792
BlnI	CCTAGG	1 cut(s)	353
BlsI	GCNGC	2 cut(s)	646, 793
BmcAI	AGTACT	1 cut(s)	66
Bme1390I	CCNGG	4 cut(s)	732, 884, 902, 1044
Bme18I	GGWCC	1 cut(s)	695
BmgT120I	GGNCC	1 cut(s)	695
BmiI	GGNNCC	1 cut(s)	759
BmrFI	CCNGG	4 cut(s)	732, 884, 902, 1044
BmsI	GCATC	3 cut(s)	427, 778, 1024
BplI	GAGNNNNNCTC	2 cut(s)	934, 966
BpmI	CTGGAG	2 cut(s)	840, 1065
Bpu10I	CCTNAGC	1 cut(s)	153
BsaAI	YACGTR	1 cut(s)	541
BsaJI	CCNNGG	7 cut(s)	353, 882, 883, 1020, 1105, 1139, 1277
Bsc4I	CCNNNNNNNGG	6 cut(s)	88, 704, 754, 779, 1178, 1282
Bse1I	ACTGG	1 cut(s)	761
Bse21I	CCTNAGG	1 cut(s)	607
BseBI	CCWGG	4 cut(s)	732, 884, 902, 1044
BseDI	CCNNGG	7 cut(s)	353, 882, 883, 1020, 1105, 1139, 1277
BseGI	GGATG	3 cut(s)	194, 697, 793
BseLI	CCNNNNNNNGG	6 cut(s)	88, 704, 754, 779, 1178, 1282
BseMII	CTCAG	2 cut(s)	144, 621
BseNI	ACTGG	1 cut(s)	761
BseRI	GAGGAG	3 cut(s)	44, 170, 1298
BseXI	GCAGC	2 cut(s)	631, 778
BseYI	CCCAGC	1 cut(s)	81
Bsh1236I	CGCG	1 cut(s)	288
BshFI	GGCC	2 cut(s)	1101, 1182
BsiHKAI	GWGCWC	1 cut(s)	1091
BslFI	GGGAC	1 cut(s)	1155
BslI	CCNNNNNNNGG	6 cut(s)	88, 704, 754, 779, 1178, 1282
BsmAI	GTCTC	2 cut(s)	327, 1121
BsmFI	GGGAC	1 cut(s)	1155
BsmI	GAATGC	1 cut(s)	1231
BsnI	GGCC	2 cut(s)	1101, 1182
Bsp1286I	GDGCHC	1 cut(s)	1091
Bsp143I	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
Bsp19I	CCATGG	1 cut(s)	1139
BspACI	CCGC	2 cut(s)	399, 1361
BspANI	GGCC	2 cut(s)	1101, 1182
BspCNI	CTCAG	2 cut(s)	145, 620
BspFNI	CGCG	1 cut(s)	288
BspHI	TCATGA	1 cut(s)	1243
BspLI	GGNNCC	1 cut(s)	759
BspPI	GGATC	6 cut(s)	291, 344, 506, 713, 752, 765
BspTI	CTTAAG	1 cut(s)	68
BsrI	ACTGG	1 cut(s)	761
BssECI	CCNNGG	7 cut(s)	353, 882, 883, 1020, 1105, 1139, 1277
BssMI	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
BssSI	CACGAG	1 cut(s)	411
BssT1I	CCWWGG	3 cut(s)	353, 1020, 1139
Bst2BI	CACGAG	1 cut(s)	411
Bst2UI	CCWGG	4 cut(s)	732, 884, 902, 1044
Bst4CI	ACNGT	1 cut(s)	1106
Bst6I	CTCTTC	1 cut(s)	1021
BstAFI	CTTAAG	1 cut(s)	68
BstBAI	YACGTR	1 cut(s)	541
BstC8I	GCNNGC	2 cut(s)	956, 1006
BstDEI	CTNAG	4 cut(s)	153, 607, 1092, 1334
BstDSI	CCRYGG	3 cut(s)	1105, 1139, 1277
BstENI	CCTNNNNNAGG	1 cut(s)	702
BstF5I	GGATG	3 cut(s)	194, 697, 793
BstFNI	CGCG	1 cut(s)	288
BstHHI	GCGC	2 cut(s)	290, 584
BstKTI	GATC	7 cut(s)	262, 286, 352, 406, 514, 721, 760
BstMAI	GTCTC	2 cut(s)	327, 1121
BstMBI	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
BstMWI	GCNNNNNNNGC	3 cut(s)	653, 964, 1188
BstNI	CCWGG	4 cut(s)	732, 884, 902, 1044
BstSCI	CCNGG	4 cut(s)	730, 882, 900, 1042
BstSFI	CTRYAG	3 cut(s)	126, 337, 1221
BstSNI	TACGTA	1 cut(s)	541
BstUI	CGCG	1 cut(s)	288
BstV1I	GCAGC	2 cut(s)	631, 778
BstX2I	RGATCY	3 cut(s)	403, 511, 757
BstYI	RGATCY	3 cut(s)	403, 511, 757
Bsu36I	CCTNAGG	1 cut(s)	607
BsuI	GTATCC	1 cut(s)	132
BsuRI	GGCC	2 cut(s)	1101, 1182
BtgI	CCRYGG	3 cut(s)	1105, 1139, 1277
BtsCI	GGATG	3 cut(s)	194, 697, 793
BtsIMutI	CAGTG	1 cut(s)	768
Cac8I	GCNNGC	2 cut(s)	956, 1006
CciI	TCATGA	1 cut(s)	1243
CfoI	GCGC	2 cut(s)	290, 584
Cfr13I	GGNCC	1 cut(s)	695
Csp6I	GTAC	1 cut(s)	65
CviAII	CATG	8 cut(s)	312, 329, 448, 592, 923, 1097, 1140, 1244
CviQI	GTAC	1 cut(s)	65
DdeI	CTNAG	4 cut(s)	153, 607, 1092, 1334
DpnI	GATC	7 cut(s)	261, 285, 351, 405, 513, 720, 759
DpnII	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
DraI	TTTAAA	1 cut(s)	1215
EaeI	YGGCCR	2 cut(s)	1099, 1180
Eam1104I	CTCTTC	1 cut(s)	1021
EarI	CTCTTC	1 cut(s)	1021
Ecl136II	GAGCTC	1 cut(s)	1089
Eco105I	TACGTA	1 cut(s)	541
Eco130I	CCWWGG	3 cut(s)	353, 1020, 1139
Eco24I	GRGCYC	1 cut(s)	1091
Eco32I	GATATC	2 cut(s)	183, 991
Eco47I	GGWCC	1 cut(s)	695
Eco53kI	GAGCTC	1 cut(s)	1089
Eco57I	CTGAAG	2 cut(s)	447, 528
Eco81I	CCTNAGG	1 cut(s)	607
EcoICRI	GAGCTC	1 cut(s)	1089
EcoNI	CCTNNNNNAGG	1 cut(s)	702
EcoRII	CCWGG	4 cut(s)	730, 882, 900, 1042
EcoRV	GATATC	2 cut(s)	183, 991
EcoT14I	CCWWGG	3 cut(s)	353, 1020, 1139
EcoT22I	ATGCAT	2 cut(s)	924, 1039
EcoT38I	GRGCYC	1 cut(s)	1091
ErhI	CCWWGG	3 cut(s)	353, 1020, 1139
FaeI	CATG	8 cut(s)	315, 332, 451, 595, 926, 1100, 1143, 1247
FaqI	GGGAC	1 cut(s)	1155
FatI	CATG	8 cut(s)	311, 328, 447, 591, 922, 1096, 1139, 1243
FauI	CCCGC	1 cut(s)	406
FauNDI	CATATG	2 cut(s)	241, 517
Fnu4HI	GCNGC	2 cut(s)	645, 792
FokI	GGATG	3 cut(s)	201, 704, 800
FriOI	GRGCYC	1 cut(s)	1091
Fsp4HI	GCNGC	2 cut(s)	645, 792
FspBI	CTAG	7 cut(s)	228, 291, 354, 534, 635, 849, 1122
GlaI	GCGC	2 cut(s)	289, 583
GluI	GCNGC	2 cut(s)	645, 792
GsaI	CCCAGC	1 cut(s)	85
GsuI	CTGGAG	2 cut(s)	840, 1065
HaeIII	GGCC	2 cut(s)	1101, 1182
HhaI	GCGC	2 cut(s)	290, 584
Hin1II	CATG	8 cut(s)	315, 332, 451, 595, 926, 1100, 1143, 1247
Hin6I	GCGC	2 cut(s)	288, 582
HinP1I	GCGC	2 cut(s)	288, 582
HinfI	GANTC	6 cut(s)	8, 308, 424, 743, 803, 1151
HphI	GGTGA	2 cut(s)	555, 1385
Hpy166II	GTNNAC	2 cut(s)	296, 975
Hpy188I	TCNGA	8 cut(s)	28, 172, 372, 423, 466, 1156, 1237, 1449
Hpy8I	GTNNAC	2 cut(s)	296, 975
HpyAV	CCTTC	1 cut(s)	198
HpyCH4III	ACNGT	1 cut(s)	1106
HpyCH4IV	ACGT	1 cut(s)	540
HpyCH4V	TGCA	6 cut(s)	737, 766, 898, 922, 1037, 1406
HpyF10VI	GCNNNNNNNGC	3 cut(s)	653, 964, 1188
HpyF3I	CTNAG	4 cut(s)	153, 607, 1092, 1334
HpySE526I	ACGT	1 cut(s)	540
Hsp92II	CATG	8 cut(s)	315, 332, 451, 595, 926, 1100, 1143, 1247
HspAI	GCGC	2 cut(s)	288, 582
Kzo9I	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
Lsp1109I	GCAGC	2 cut(s)	631, 778
LweI	GCATC	3 cut(s)	427, 778, 1024
MaeI	CTAG	7 cut(s)	228, 291, 354, 534, 635, 849, 1122
MaeII	ACGT	1 cut(s)	540
MaeIII	GTNAC	2 cut(s)	541, 1339
MalI	GATC	7 cut(s)	261, 285, 351, 405, 513, 720, 759
MboI	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
MboII	GAAGA	6 cut(s)	17, 453, 521, 990, 1008, 1087
MfeI	CAATTG	2 cut(s)	777, 959
MflI	RGATCY	3 cut(s)	403, 511, 757
MhlI	GDGCHC	1 cut(s)	1091
MlsI	TGGCCA	2 cut(s)	1101, 1182
MluNI	TGGCCA	2 cut(s)	1101, 1182
MlyI	GAGTC	3 cut(s)	17, 302, 1160
MmeI	TCCRAC	2 cut(s)	350, 1345
Mox20I	TGGCCA	2 cut(s)	1101, 1182
Mph1103I	ATGCAT	2 cut(s)	924, 1039
MscI	TGGCCA	2 cut(s)	1101, 1182
Msp20I	TGGCCA	2 cut(s)	1101, 1182
MspA1I	CMGCKG	1 cut(s)	656
MspCI	CTTAAG	1 cut(s)	68
MspR9I	CCNGG	4 cut(s)	732, 884, 902, 1044
MunI	CAATTG	2 cut(s)	777, 959
Mva1269I	GAATGC	1 cut(s)	1231
MvaI	CCWGG	4 cut(s)	732, 884, 902, 1044
MvnI	CGCG	1 cut(s)	288
MwoI	GCNNNNNNNGC	3 cut(s)	653, 964, 1188
NcoI	CCATGG	1 cut(s)	1139
NdeI	CATATG	2 cut(s)	241, 517
NdeII	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
NlaIII	CATG	8 cut(s)	315, 332, 451, 595, 926, 1100, 1143, 1247
NlaIV	GGNNCC	1 cut(s)	759
NsiI	ATGCAT	2 cut(s)	924, 1039
PagI	TCATGA	1 cut(s)	1243
PasI	CCCWGGG	1 cut(s)	883
PcsI	WCGNNNNNNNCGW	1 cut(s)	259
PctI	GAATGC	1 cut(s)	1231
PfeI	GAWTC	3 cut(s)	424, 743, 803
PflMI	CCANNNNNTGG	2 cut(s)	88, 779
PfoI	TCCNGGA	1 cut(s)	1042
PkrI	GCNGC	2 cut(s)	646, 793
PleI	GAGTC	3 cut(s)	16, 302, 1159
PpsI	GAGTC	3 cut(s)	16, 302, 1159
Ppu21I	YACGTR	1 cut(s)	541
PsiI	TTATAA	2 cut(s)	108, 1062
Psp124BI	GAGCTC	1 cut(s)	1091
Psp6I	CCWGG	4 cut(s)	730, 882, 900, 1042
PspFI	CCCAGC	1 cut(s)	81
PspGI	CCWGG	4 cut(s)	730, 882, 900, 1042
PspN4I	GGNNCC	1 cut(s)	759
PspPI	GGNCC	1 cut(s)	695
PsuI	RGATCY	3 cut(s)	403, 511, 757
PvuII	CAGCTG	1 cut(s)	656
RsaI	GTAC	1 cut(s)	66
RsaNI	GTAC	1 cut(s)	65
SacI	GAGCTC	1 cut(s)	1091
SatI	GCNGC	2 cut(s)	645, 792
Sau3AI	GATC	7 cut(s)	259, 283, 349, 403, 511, 718, 757
Sau96I	GGNCC	1 cut(s)	695
ScaI	AGTACT	1 cut(s)	66
SchI	GAGTC	3 cut(s)	17, 302, 1160
ScrFI	CCNGG	4 cut(s)	732, 884, 902, 1044
SduI	GDGCHC	1 cut(s)	1091
SfaNI	GCATC	3 cut(s)	427, 778, 1024
SfcI	CTRYAG	3 cut(s)	126, 337, 1221
SinI	GGWCC	1 cut(s)	695
SmlI	CTYRAG	1 cut(s)	68
SmoI	CTYRAG	1 cut(s)	68
SnaBI	TACGTA	1 cut(s)	541
SpeI	ACTAGT	1 cut(s)	1121
SsiI	CCGC	2 cut(s)	399, 1361
SspMI	CTAG	7 cut(s)	228, 291, 354, 534, 635, 849, 1122
SstI	GAGCTC	1 cut(s)	1091
StyD4I	CCNGG	4 cut(s)	730, 882, 900, 1042
StyI	CCWWGG	3 cut(s)	353, 1020, 1139
TaaI	ACNGT	1 cut(s)	1106
TaiI	ACGT	1 cut(s)	543
TatI	WGTACW	1 cut(s)	64
TfiI	GAWTC	3 cut(s)	424, 743, 803
TscAI	CASTG	1 cut(s)	768
TseI	GCWGC	2 cut(s)	644, 791
TspDTI	ATGAA	7 cut(s)	11, 30, 152, 249, 416, 870, 1368
TspRI	CASTG	1 cut(s)	768
Van91I	CCANNNNNTGG	2 cut(s)	88, 779
Vha464I	CTTAAG	1 cut(s)	68
VpaK11BI	GGWCC	1 cut(s)	695
XagI	CCTNNNNNAGG	1 cut(s)	702
XapI	RAATTY	4 cut(s)	101, 713, 1216, 1428
XbaI	TCTAGA	2 cut(s)	227, 533
XcmI	CCANNNNNNNNNTGG	1 cut(s)	908
XmaJI	CCTAGG	1 cut(s)	353
XspI	CTAG	7 cut(s)	228, 291, 354, 534, 635, 849, 1122
ZrmI	AGTACT	1 cut(s)	66
Zsp2I	ATGCAT	2 cut(s)	924, 1039

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