Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001139

Physical Location & Seq

Genomic Coordinates Reverse (-)

39221430 .. 39223937

Gene Structure 2508 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG201700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGTCCATAGCTTCAAGAATGGCATCAACTTTCTCATTATTCTTCTCCATTTTCATCGTCACCTTCTCACCAACCTTGTGCCTGAACCAGTACCATCCCCTAGACCCTCTAACCCAGTCGGAGTTCAATCAGATTAAATCCATAATTCAAAGCTCATACCCCTCTCAAAACCTCACGTTCCAATATGTCGGATTAGACGAACCAGAAAAGTCCACTGTCATCTTATGGAATTCCATCACAGCCAAATCCTACCCTCCTCGCCGAGCCTCAGTTGTTACAAGACTAAACAAACAAACCCACGAGATTATAGTCGATTTATCAACCCATTCTATTCTCTCTAGTAAAGTTCACAAGGGAAATGGCTACCCTCTGCTAACCGCAGACGAACAAACACTTGCAAATGAGTTGCCTTTTAATTATCAACCATTCATTCAATCCATTAAAAGGAGAGGGCTTAATATATCTCAAGTTGTGTGTAGCGGTTTTACAGTTGGTTGGTTCGGAGAGGGAAAGACTAGAAGAATAATAAAGATTAATTCCTTTTACACAAATGGGACAGTGAACTTGTTTGTGAGGCCTGTGGAGGGAATAACGTTGGTTGTTGATCTTGATATAATGAAGATAGTTCAATACAGTGACAGGGCTGTAGTTCCGGTGCCAAAGGGAGAGGGAACCGAGTACCGGGCCTCAAAGCAGAAGCGGCCTTTTGGTCCACGACTAAATGGTGCTTCAGTTTTGTCTGGGGGAGAAGGGTTCGTCCTTGACGGGAACATTATCAGATGGGCCAACTCGGTTTTTCATCTCGGATTTGATGTTCGAACGGGAACGATTATATCTCAAGCATCAATTTACGATCTGGACAAGAAGAAATACAGGAGAGTTTTGTACAGAGGGTTTGTCTCAGAGCTGTTTGTGCCTTACATGAACCCAACTGCTGACTGGTACTACAAAACCTTCTTTGACAATGGAGAGTTTGGGTTCGGCCAAACTACTGTCTCACTTGAACCATTGACTGATTGTCCTAACAATGCAAAGTTCATAGATGCCTTACTATGCTTCACAAGAAGGCACACCTGTGAAGATATCGAATGCTATATGTATCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0008150 GO:0008152 GO:0009987 GO:0010035 GO:0016491 GO:0016638 GO:0016641 GO:0042221 GO:0050896 GO:0051716 GO:0052597 GO:0055114 GO:0070887 GO:0071241 GO:0097184 GO:0097185 GO:1901698 GO:1901699

KEGG Pathways

Metabolic & Signaling

ko00260 ko00350 ko00360 ko00410 ko00950 ko00960 ko01100 ko01110 map00260 map00350 map00360 map00410 map00950 map00960 map01100 map01110

Pfam Domains

Protein Families

Cu_amine_oxid Cu_amine_oxidN2 Cu_amine_oxidN3

Protein Analysis

368

Amino Acids

41.71

Weight (kDa)

8.87

Isoelectric Point (pI)

47.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Cu_amine_oxidN2	PF02727	32 - 115	6.5e-19	Copper amine oxidase, N2 domain
Cu_amine_oxidN3	PF02728	123 - 219	1.2e-21	Copper amine oxidase, N3 domain
Cu_amine_oxid	PF01179	248 - 354	2.8e-26	Copper amine oxidase, enzyme domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0001139)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G31690 AT1G31710
fragaria_vesca	FvH4_2g30510 FvH4_4g15340 FvH4_4g15360 FvH4_4g15380
malus_domestica	MD16G1191900.v1.1 MD16G1192100.v1.1 MD16G1192300.v1.1
prunus_persica	Prupe.1G011900_v2.0.a1 Prupe.1G012000_v2.0.a1
pyrus_communis	pycom16g16160 pycom16g16180 pycom16g16190 pycom16g16200
rosa_chinensis	RchiOBHm_Chr2g0122101 RchiOBHm_Chr4g0416421 RchiOBHm_Chr4g0416431 RchiOBHm_Chr4g0416451 RchiOBHm_Chr4g0416461 RchiOBHm_Chr4g0416501
rosa_laevigata	RLG00000007978 RLG00000007979 RLG00000007982 RLG00000007983
rosa_multiflora	Rmu_co8318835.1_g000001 Rmu_sc0003722.1_g000010 Rmu_sc0003722.1_g000023
rosa_roxburghii	Rroxscaffold_2G00090210 Rroxscaffold_5G00360250 Rroxscaffold_5G00360280 Rroxscaffold_5G00360360 Rroxscaffold_5G00360370
rosa_rugosa	Rorug04G0141800 Rorug04G0141900 Rorug04G0142200
rosa_samantha	Rh4AG204100 Rh4AG204200 Rh4AG204300 Rh4AG204600 Rh4BG201800 Rh4BG202200 Rh4BG202400 Rh4CG215300 Rh4CG215500 Rh4CG215800 Rh4DG201600 Rh4DG201700 Rh4DG201800 Rh5BG514400 Rh5CG538000 Rh5DG526800 Rh7AG414700 Rh7AG415300
rosa_wichuraiana	Rw4G017280 Rw4G017290 Rw4G017310 Rw5G045710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	655
AciI	CCGC	3 cut(s)	378, 480, 700
AclI	AACGTT	1 cut(s)	593
AcoI	YGGCCR	1 cut(s)	982
AcsI	RAATTY	1 cut(s)	229
AcuI	CTGAAG	1 cut(s)	714
AfaI	GTAC	4 cut(s)	92, 680, 887, 944
AfiI	CCNNNNNNNGG	3 cut(s)	444, 584, 681
AgsI	TTSAA	6 cut(s)	15, 127, 149, 434, 629, 1004
AhdI	GACNNNNNGTC	1 cut(s)	1017
AleI	CACNNNNGTG	1 cut(s)	1074
AloI	GAACNNNNNNTCC	2 cut(s)	798, 830
AluBI	AGCT	3 cut(s)	11, 153, 907
AluI	AGCT	3 cut(s)	11, 153, 907
Alw26I	GTCTC	2 cut(s)	904, 1000
AoxI	GGCC	5 cut(s)	575, 684, 701, 783, 982
ApoI	RAATTY	1 cut(s)	229
AseI	ATTAAT	1 cut(s)	534
AspS9I	GGNCC	3 cut(s)	684, 710, 783
AsuC2I	CCSGG	1 cut(s)	683
AsuHPI	GGTGA	2 cut(s)	52, 60
AsuII	TTCGAA	1 cut(s)	817
AvaII	GGWCC	1 cut(s)	710
BanI	GGYRCC	1 cut(s)	655
BauI	CACGAG	1 cut(s)	299
BccI	CCATC	3 cut(s)	102, 242, 774
BcnI	CCSGG	1 cut(s)	683
BcoDI	GTCTC	2 cut(s)	904, 1000
BfaI	CTAG	3 cut(s)	101, 339, 516
BfmI	CTRYAG	1 cut(s)	645
BisI	GCNGC	1 cut(s)	701
BlsI	GCNGC	1 cut(s)	702
Bme1390I	CCNGG	1 cut(s)	683
Bme18I	GGWCC	1 cut(s)	710
BmeRI	GACNNNNNGTC	1 cut(s)	1017
BmgT120I	GGNCC	3 cut(s)	684, 710, 783
BmiI	GGNNCC	2 cut(s)	657, 673
BmrFI	CCNGG	1 cut(s)	683
BmrI	ACTGGG	1 cut(s)	109
BmsI	GCATC	3 cut(s)	32, 851, 1033
BmuI	ACTGGG	1 cut(s)	109
Bpu14I	TTCGAA	1 cut(s)	817
BpuEI	CTTGAG	2 cut(s)	450, 822
BpuMI	CCSGG	1 cut(s)	683
BsaWI	WCCGGW	1 cut(s)	652
Bsc4I	CCNNNNNNNGG	3 cut(s)	444, 584, 681
Bse1I	ACTGG	3 cut(s)	88, 115, 944
BseGI	GGATG	1 cut(s)	94
BseLI	CCNNNNNNNGG	3 cut(s)	444, 584, 681
BseMII	CTCAG	2 cut(s)	282, 915
BseNI	ACTGG	3 cut(s)	88, 115, 944
BseRI	GAGGAG	1 cut(s)	246
BshFI	GGCC	5 cut(s)	577, 686, 703, 785, 984
BshNI	GGYRCC	1 cut(s)	655
BsiSI	CCGG	2 cut(s)	653, 682
BslFI	GGGAC	1 cut(s)	568
BslI	CCNNNNNNNGG	3 cut(s)	444, 584, 681
BsmAI	GTCTC	2 cut(s)	904, 1000
BsmFI	GGGAC	1 cut(s)	568
BsmI	GAATGC	1 cut(s)	1094
BsnI	GGCC	5 cut(s)	577, 686, 703, 785, 984
Bsp119I	TTCGAA	1 cut(s)	817
Bsp1407I	TGTACA	1 cut(s)	885
Bsp143I	GATC	2 cut(s)	604, 853
BspACI	CCGC	3 cut(s)	378, 480, 700
BspANI	GGCC	5 cut(s)	577, 686, 703, 785, 984
BspCNI	CTCAG	2 cut(s)	281, 914
BspLI	GGNNCC	2 cut(s)	657, 673
BspT104I	TTCGAA	1 cut(s)	817
BspT107I	GGYRCC	1 cut(s)	655
BsrGI	TGTACA	1 cut(s)	885
BsrI	ACTGG	3 cut(s)	88, 115, 944
BssMI	GATC	2 cut(s)	604, 853
BssSI	CACGAG	1 cut(s)	299
Bst2BI	CACGAG	1 cut(s)	299
Bst4CI	ACNGT	5 cut(s)	217, 490, 559, 635, 994
BstAUI	TGTACA	1 cut(s)	885
BstBI	TTCGAA	1 cut(s)	817
BstDEI	CTNAG	2 cut(s)	268, 901
BstF5I	GGATG	1 cut(s)	94
BstKTI	GATC	2 cut(s)	607, 856
BstMAI	GTCTC	2 cut(s)	904, 1000
BstMBI	GATC	2 cut(s)	604, 853
BstMWI	GCNNNNNNNGC	2 cut(s)	700, 913
BstSCI	CCNGG	1 cut(s)	681
BstSFI	CTRYAG	1 cut(s)	645
BsuRI	GGCC	5 cut(s)	577, 686, 703, 785, 984
BtsCI	GGATG	1 cut(s)	94
BtsIMutI	CAGTG	3 cut(s)	213, 564, 640
Cfr13I	GGNCC	3 cut(s)	684, 710, 783
Csp6I	GTAC	4 cut(s)	91, 679, 886, 943
CviAII	CATG	1 cut(s)	922
CviQI	GTAC	4 cut(s)	91, 679, 886, 943
DdeI	CTNAG	2 cut(s)	268, 901
DpnI	GATC	2 cut(s)	606, 855
DpnII	GATC	2 cut(s)	604, 853
DriI	GACNNNNNGTC	1 cut(s)	1017
EaeI	YGGCCR	1 cut(s)	982
Eam1105I	GACNNNNNGTC	1 cut(s)	1017
Eco147I	AGGCCT	1 cut(s)	577
Eco32I	GATATC	1 cut(s)	1084
Eco47I	GGWCC	1 cut(s)	710
Eco57I	CTGAAG	1 cut(s)	714
EcoRI	GAATTC	1 cut(s)	229
EcoRV	GATATC	1 cut(s)	1084
FaeI	CATG	1 cut(s)	925
FaqI	GGGAC	1 cut(s)	568
FatI	CATG	1 cut(s)	921
Fnu4HI	GCNGC	1 cut(s)	701
FokI	GGATG	1 cut(s)	81
Fsp4HI	GCNGC	1 cut(s)	701
FspBI	CTAG	3 cut(s)	101, 339, 516
GluI	GCNGC	1 cut(s)	701
HaeIII	GGCC	5 cut(s)	577, 686, 703, 785, 984
HapII	CCGG	2 cut(s)	653, 682
Hin1II	CATG	1 cut(s)	925
HpaII	CCGG	2 cut(s)	653, 682
HphI	GGTGA	2 cut(s)	52, 60
Hpy166II	GTNNAC	4 cut(s)	213, 349, 562, 713
Hpy188I	TCNGA	7 cut(s)	121, 132, 191, 503, 779, 806, 904
Hpy188III	TCNNGA	3 cut(s)	15, 608, 857
Hpy8I	GTNNAC	4 cut(s)	213, 349, 562, 713
HpyAV	CCTTC	4 cut(s)	73, 743, 964, 1059
HpyCH4III	ACNGT	5 cut(s)	217, 490, 559, 635, 994
HpyCH4IV	ACGT	2 cut(s)	176, 593
HpyCH4V	TGCA	2 cut(s)	398, 1031
HpyF10VI	GCNNNNNNNGC	2 cut(s)	700, 913
HpyF3I	CTNAG	2 cut(s)	268, 901
HpySE526I	ACGT	2 cut(s)	176, 593
Hsp92II	CATG	1 cut(s)	925
Kzo9I	GATC	2 cut(s)	604, 853
LweI	GCATC	3 cut(s)	32, 851, 1033
MaeI	CTAG	3 cut(s)	101, 339, 516
MaeII	ACGT	2 cut(s)	176, 593
MaeIII	GTNAC	3 cut(s)	58, 274, 635
MalI	GATC	2 cut(s)	606, 855
MboI	GATC	2 cut(s)	604, 853
MboII	GAAGA	5 cut(s)	34, 531, 631, 877, 1091
MluCI	AATT	5 cut(s)	144, 229, 415, 535, 846
MmeI	TCCRAC	2 cut(s)	99, 169
MseI	TTAA	5 cut(s)	135, 414, 441, 456, 534
MslI	CAYNNNNRTG	1 cut(s)	1074
MspI	CCGG	2 cut(s)	653, 682
MspR9I	CCNGG	1 cut(s)	683
Mva1269I	GAATGC	1 cut(s)	1094
MwoI	GCNNNNNNNGC	2 cut(s)	700, 913
NciI	CCSGG	1 cut(s)	683
NdeII	GATC	2 cut(s)	604, 853
NlaIII	CATG	1 cut(s)	925
NlaIV	GGNNCC	2 cut(s)	657, 673
NmeAIII	GCCGAG	1 cut(s)	287
NmuCI	GTSAC	2 cut(s)	58, 635
NspV	TTCGAA	1 cut(s)	817
OliI	CACNNNNGTG	1 cut(s)	1074
PceI	AGGCCT	1 cut(s)	577
PcsI	WCGNNNNNNNCGW	1 cut(s)	195
PctI	GAATGC	1 cut(s)	1094
PkrI	GCNGC	1 cut(s)	702
PshBI	ATTAAT	1 cut(s)	534
Psp1406I	AACGTT	1 cut(s)	593
PspN4I	GGNNCC	2 cut(s)	657, 673
PspPI	GGNCC	3 cut(s)	684, 710, 783
RsaI	GTAC	4 cut(s)	92, 680, 887, 944
RsaNI	GTAC	4 cut(s)	91, 679, 886, 943
RseI	CAYNNNNRTG	1 cut(s)	1074
SaqAI	TTAA	5 cut(s)	135, 414, 441, 456, 534
SatI	GCNGC	1 cut(s)	701
Sau3AI	GATC	2 cut(s)	604, 853
Sau96I	GGNCC	3 cut(s)	684, 710, 783
ScrFI	CCNGG	1 cut(s)	683
SfaNI	GCATC	3 cut(s)	32, 851, 1033
SfcI	CTRYAG	1 cut(s)	645
SfuI	TTCGAA	1 cut(s)	817
SinI	GGWCC	1 cut(s)	710
SmiMI	CAYNNNNRTG	1 cut(s)	1074
SmlI	CTYRAG	2 cut(s)	465, 837
SmoI	CTYRAG	2 cut(s)	465, 837
Sse9I	AATT	5 cut(s)	144, 229, 415, 535, 846
SseBI	AGGCCT	1 cut(s)	577
SsiI	CCGC	3 cut(s)	378, 480, 700
SspMI	CTAG	3 cut(s)	101, 339, 516
StuI	AGGCCT	1 cut(s)	577
StyD4I	CCNGG	1 cut(s)	681
TaaI	ACNGT	5 cut(s)	217, 490, 559, 635, 994
TaiI	ACGT	2 cut(s)	179, 596
TaqI	TCGA	3 cut(s)	312, 817, 1086
TasI	AATT	5 cut(s)	144, 229, 415, 535, 846
TatI	WGTACW	1 cut(s)	885
TauI	GCSGC	1 cut(s)	703
Tru1I	TTAA	5 cut(s)	135, 414, 441, 456, 534
Tru9I	TTAA	5 cut(s)	135, 414, 441, 456, 534
TscAI	CASTG	3 cut(s)	220, 564, 640
TseFI	GTSAC	2 cut(s)	58, 635
Tsp45I	GTSAC	2 cut(s)	58, 635
TspDTI	ATGAA	6 cut(s)	43, 418, 632, 788, 938, 1027
TspRI	CASTG	3 cut(s)	220, 564, 640
VpaK11BI	GGWCC	1 cut(s)	710
VspI	ATTAAT	1 cut(s)	534
XapI	RAATTY	1 cut(s)	229
XcmI	CCANNNNNNNNNTGG	1 cut(s)	936
XspI	CTAG	3 cut(s)	101, 339, 516

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