Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0007353

Physical Location & Seq

Genomic Coordinates Forward (+)

63281154 .. 63287835

Gene Structure 6682 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00383660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1176 bp

ATGAATTTAAAGGTTCCTATTTACTTCTCAGCAGGTTTGACCCGTCAAGCCAATATGTATTATAAGATGCTCATCAGTTGGACCAGCCAGAAAATCAAAGAAACATACTCCACACATAATGCATTTGATTTTAAAAATGTTCACAAATTTGAGCGGTCTATGATAGATGCTCCTGGACCTTGTGTTCTGTTTGCCACACCAGGGATGATCAGTGGTGGTTTTTCACTTGAGGTTTTTAAGCACTGGGCTCCTTCAGAAAAGAATCTTGTTACAATGCCAGGGTATTGCGTGGCTGGAACCATAGGACATAAATTAATGTCTGGTAAACCGACCAAAATTGATCTGGATAAGGACACCCGAATTGATGTGCGATGCCAGATTCATCAATTGACTTTCAGTCCTCATACAGATGCCAAAGGGATTATGGATCTGGTGAAGTTTCTTTCTCCCAAGCACGTGATACTTGTTCATGGTGAGAAGCCTAGGATGGCTACTCTGAAAGGAAGAATTCAATCCGAACTGGGAATTCAATGCTACGACCCTGCAAACAATGAGACCGTGTCTGTTCCGTCCACCCACTATGCGACAGCAGTAGCTTCCGATGCATTTGTCCAAAGTTGCTCAAATCCAAACTTCAAGTTTTCTACAGGCGGCTCAGAACACGAACAAGGCTCAAGTTCGAGTTCGAGTAACAGAAAATCCATTCCACGACTGCAAGTAAGTGATGATAGGGTAGCCGAAGGGATCTTGGTTATGGAGAAAAACAAAAAAGCCAAGGTAGTGCACCAAGATGAGCTCCTGGTCATGTTAGAAGAAAAGAAGCACCAAGTCAAGTTTGCATATTGCTGTCCTGTTCACATCGGTAACTTGCAAGAAAATCAAGAGACCGAACGCACCGGCCTGCCTCTGTCCTCAACAAACAATGATCTGCTTCAGCTATTGTCTGCAAAACTCGCAAATGAACTCTCCGAGGGGAGCATTCAAGATTTTGGGGATCACCTTCAAGTGGAGACGTTTCGCGTGTCCATTTGTTCAAAGGAGGATTGCCCTTACAGATTAAGTGACAACGGTGGTGAAGAACACTATGAGCCAGTGTTCTTTTGCTGCAGTTGGGCAGTGGAAGATGAGAAGCTTGCATGGAAAGTCATCTCAGTGTGTCAAGAGTCAACACTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000741 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006996 GO:0006997 GO:0007275 GO:0008150 GO:0009553 GO:0009559 GO:0009561 GO:0009987 GO:0010197 GO:0016043 GO:0030154 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048284 GO:0048856 GO:0048869 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Beta-Casp Lactamase_B_6 RMMBL zf-RING_2

Protein Analysis

391

Amino Acids

43.68

Weight (kDa)

6.43

Isoelectric Point (pI)

38.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-Casp	PF10996	4 - 105	1.5e-22	Beta-Casp domain
RMMBL	PF07521	120 - 179	4.8e-16	Zn-dependent metallo-hydrolase RNA specificity 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

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Orthologous Genes (Group: OG0007353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G01730 AT2G01730
fragaria_vesca	FvH4_4g33520
malus_domestica	MD16G1018300.v1.1
prunus_persica	Prupe.1G333600_v2.0.a1
pyrus_communis	pycom16g01670
rosa_chinensis	RchiOBHm_Chr3g0480131 RchiOBHm_Chr4g0443031
rosa_laevigata	RLG00000005961
rosa_multiflora	Rmu_co8263599.1_g000001 Rmu_sc0006604.1_g000001 Rmu_sc0006604.1_g000004 Rmu_sc0008055.1_g000002 Rmu_sc0011261.1_g000006
rosa_roxburghii	Rroxscaffold_5G00383660
rosa_rugosa	Rorug04G0343900
rosa_samantha	Rh3AG232100 Rh3CG261900 Rh3DG257700 Rh4AG398100 Rh4BG409600 Rh4CG425100 Rh4DG404400
rosa_wichuraiana	Rw3G020840 Rw4G034290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	63
Acc36I	ACCTGC	1 cut(s)	23
AccBSI	CCGCTC	1 cut(s)	154
AccII	CGCG	1 cut(s)	1020
AciI	CCGC	2 cut(s)	154, 651
AclWI	GGATC	3 cut(s)	435, 752, 1002
AcsI	RAATTY	4 cut(s)	4, 146, 507, 525
AcuI	CTGAAG	2 cut(s)	237, 917
AcvI	CACGTG	1 cut(s)	457
AfiI	CCNNNNNNNGG	2 cut(s)	201, 1006
AgsI	TTSAA	6 cut(s)	512, 530, 637, 983, 1004, 1035
AhdI	GACNNNNNGTC	1 cut(s)	396
AjnI	CCWGG	4 cut(s)	172, 199, 277, 798
AloI	GAACNNNNNNTCC	2 cut(s)	168, 200
AluBI	AGCT	4 cut(s)	596, 796, 937, 1132
AluI	AGCT	4 cut(s)	596, 796, 937, 1132
Alw21I	GWGCWC	2 cut(s)	786, 798
Alw26I	GTCTC	3 cut(s)	548, 878, 1004
Alw44I	GTGCAC	1 cut(s)	782
AlwI	GGATC	3 cut(s)	435, 752, 1002
AoxI	GGCC	1 cut(s)	898
ApaLI	GTGCAC	1 cut(s)	782
ApeKI	GCWGC	1 cut(s)	1104
ApoI	RAATTY	4 cut(s)	4, 146, 507, 525
AseI	ATTAAT	1 cut(s)	314
AspA2I	CCTAGG	1 cut(s)	482
AspS9I	GGNCC	2 cut(s)	81, 176
AsuHPI	GGTGA	4 cut(s)	445, 485, 989, 1085
AvaII	GGWCC	2 cut(s)	81, 176
AvrII	CCTAGG	1 cut(s)	482
BaeGI	GKGCMC	1 cut(s)	786
BanII	GRGCYC	2 cut(s)	250, 798
BbrPI	CACGTG	1 cut(s)	457
Bbv12I	GWGCWC	2 cut(s)	786, 798
BbvI	GCAGC	1 cut(s)	1091
BccI	CCATC	1 cut(s)	481
BciT130I	CCWGG	4 cut(s)	174, 201, 279, 800
BclI	TGATCA	1 cut(s)	207
BcoDI	GTCTC	3 cut(s)	548, 878, 1004
BfaI	CTAG	1 cut(s)	483
BfmI	CTRYAG	2 cut(s)	645, 1105
BfuAI	ACCTGC	1 cut(s)	23
BisI	GCNGC	2 cut(s)	652, 1105
BlnI	CCTAGG	1 cut(s)	482
BlsI	GCNGC	2 cut(s)	653, 1106
Bme1390I	CCNGG	4 cut(s)	174, 201, 279, 800
Bme18I	GGWCC	2 cut(s)	81, 176
BmeRI	GACNNNNNGTC	1 cut(s)	396
BmgT120I	GGNCC	2 cut(s)	81, 176
BmiI	GGNNCC	3 cut(s)	15, 249, 298
BmrFI	CCNGG	4 cut(s)	174, 201, 279, 800
BmrI	ACTGGG	2 cut(s)	253, 530
BmsI	GCATC	5 cut(s)	57, 157, 362, 400, 592
BmuI	ACTGGG	2 cut(s)	253, 530
BpuEI	CTTGAG	2 cut(s)	248, 658
BsaAI	YACGTR	1 cut(s)	457
BsaBI	GATNNNNATC	1 cut(s)	71
BsaI	GGTCTC	2 cut(s)	548, 878
BsaJI	CCNNGG	5 cut(s)	200, 278, 482, 774, 969
Bsc4I	CCNNNNNNNGG	2 cut(s)	201, 1006
Bse118I	RCCGGY	1 cut(s)	896
Bse1I	ACTGG	3 cut(s)	248, 525, 1091
Bse8I	GATNNNNATC	1 cut(s)	71
BseBI	CCWGG	4 cut(s)	174, 201, 279, 800
BseDI	CCNNGG	5 cut(s)	200, 278, 482, 774, 969
BseGI	GGATG	2 cut(s)	210, 492
BseJI	GATNNNNATC	1 cut(s)	71
BseLI	CCNNNNNNNGG	2 cut(s)	201, 1006
BseMII	CTCAG	3 cut(s)	42, 669, 1164
BseNI	ACTGG	3 cut(s)	248, 525, 1091
BseSI	GKGCMC	1 cut(s)	786
BseXI	GCAGC	1 cut(s)	1091
Bsh1236I	CGCG	1 cut(s)	1020
BshFI	GGCC	1 cut(s)	900
BsiHKAI	GWGCWC	2 cut(s)	786, 798
BsiSI	CCGG	1 cut(s)	897
BslI	CCNNNNNNNGG	2 cut(s)	201, 1006
BsmAI	GTCTC	3 cut(s)	548, 878, 1004
BsmBI	CGTCTC	1 cut(s)	1004
BsmI	GAATGC	1 cut(s)	978
BsnI	GGCC	1 cut(s)	900
Bso31I	GGTCTC	2 cut(s)	548, 878
Bsp1286I	GDGCHC	3 cut(s)	250, 786, 798
Bsp143I	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
BspACI	CCGC	2 cut(s)	154, 651
BspANI	GGCC	1 cut(s)	900
BspCNI	CTCAG	3 cut(s)	41, 668, 1163
BspFNI	CGCG	1 cut(s)	1020
BspLI	GGNNCC	3 cut(s)	15, 249, 298
BspMAI	CTGCAG	1 cut(s)	1109
BspMI	ACCTGC	1 cut(s)	23
BspPI	GGATC	3 cut(s)	435, 752, 1002
BspTNI	GGTCTC	2 cut(s)	548, 878
BsrBI	CCGCTC	1 cut(s)	154
BsrFI	RCCGGY	1 cut(s)	896
BsrI	ACTGG	3 cut(s)	248, 525, 1091
BssAI	RCCGGY	1 cut(s)	896
BssECI	CCNNGG	5 cut(s)	200, 278, 482, 774, 969
BssMI	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
BssT1I	CCWWGG	2 cut(s)	482, 774
Bst2UI	CCWGG	4 cut(s)	174, 201, 279, 800
Bst4CI	ACNGT	2 cut(s)	559, 1070
BstBAI	YACGTR	1 cut(s)	457
BstC8I	GCNNGC	2 cut(s)	902, 1134
BstDEI	CTNAG	3 cut(s)	28, 655, 1150
BstF5I	GGATG	2 cut(s)	210, 492
BstFNI	CGCG	1 cut(s)	1020
BstKTI	GATC	6 cut(s)	210, 343, 430, 747, 928, 997
BstMAI	GTCTC	3 cut(s)	548, 878, 1004
BstMBI	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
BstMWI	GCNNNNNNNGC	2 cut(s)	602, 953
BstNI	CCWGG	4 cut(s)	174, 201, 279, 800
BstSCI	CCNGG	4 cut(s)	172, 199, 277, 798
BstSFI	CTRYAG	2 cut(s)	645, 1105
BstSLI	GKGCMC	1 cut(s)	786
BstUI	CGCG	1 cut(s)	1020
BstV1I	GCAGC	1 cut(s)	1091
BstX2I	RGATCY	2 cut(s)	427, 744
BstYI	RGATCY	2 cut(s)	427, 744
BsuRI	GGCC	1 cut(s)	900
BtgZI	GCGATG	1 cut(s)	385
BtsCI	GGATG	2 cut(s)	210, 492
BtsI	GCAGTG	1 cut(s)	1122
BtsIMutI	CAGTG	5 cut(s)	217, 241, 1098, 1122, 1158
BveI	ACCTGC	1 cut(s)	23
Cac8I	GCNNGC	2 cut(s)	902, 1134
Cfr10I	RCCGGY	1 cut(s)	896
Cfr13I	GGNCC	2 cut(s)	81, 176
CviAII	CATG	3 cut(s)	470, 805, 1137
DdeI	CTNAG	3 cut(s)	28, 655, 1150
DpnI	GATC	6 cut(s)	209, 342, 429, 746, 927, 996
DpnII	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
DraI	TTTAAA	2 cut(s)	9, 133
DriI	GACNNNNNGTC	1 cut(s)	396
Eam1105I	GACNNNNNGTC	1 cut(s)	396
Ecl136II	GAGCTC	1 cut(s)	796
Eco130I	CCWWGG	2 cut(s)	482, 774
Eco24I	GRGCYC	2 cut(s)	250, 798
Eco31I	GGTCTC	2 cut(s)	548, 878
Eco47I	GGWCC	2 cut(s)	81, 176
Eco53kI	GAGCTC	1 cut(s)	796
Eco57I	CTGAAG	2 cut(s)	237, 917
Eco72I	CACGTG	1 cut(s)	457
EcoICRI	GAGCTC	1 cut(s)	796
EcoRI	GAATTC	2 cut(s)	507, 525
EcoRII	CCWGG	4 cut(s)	172, 199, 277, 798
EcoT14I	CCWWGG	2 cut(s)	482, 774
EcoT22I	ATGCAT	2 cut(s)	124, 607
EcoT38I	GRGCYC	2 cut(s)	250, 798
ErhI	CCWWGG	2 cut(s)	482, 774
Esp3I	CGTCTC	1 cut(s)	1004
FaeI	CATG	3 cut(s)	473, 808, 1140
FatI	CATG	3 cut(s)	469, 804, 1136
FbaI	TGATCA	1 cut(s)	207
Fnu4HI	GCNGC	2 cut(s)	652, 1105
FokI	GGATG	2 cut(s)	217, 499
FriOI	GRGCYC	2 cut(s)	250, 798
Fsp4HI	GCNGC	2 cut(s)	652, 1105
FspBI	CTAG	1 cut(s)	483
GluI	GCNGC	2 cut(s)	652, 1105
HaeIII	GGCC	1 cut(s)	900
HapII	CCGG	1 cut(s)	897
Hin1II	CATG	3 cut(s)	473, 808, 1140
HincII	GTYRAC	1 cut(s)	1167
HindII	GTYRAC	1 cut(s)	1167
HindIII	AAGCTT	1 cut(s)	1130
HinfI	GANTC	3 cut(s)	262, 379, 1163
HpaII	CCGG	1 cut(s)	897
HphI	GGTGA	4 cut(s)	445, 485, 989, 1085
Hpy166II	GTNNAC	6 cut(s)	142, 326, 573, 784, 856, 1167
Hpy188I	TCNGA	6 cut(s)	256, 498, 517, 601, 658, 970
Hpy188III	TCNNGA	4 cut(s)	344, 881, 983, 1160
Hpy8I	GTNNAC	6 cut(s)	142, 326, 573, 784, 856, 1167
HpyAV	CCTTC	3 cut(s)	261, 734, 1010
HpyCH4III	ACNGT	2 cut(s)	559, 1070
HpyCH4IV	ACGT	2 cut(s)	456, 1013
HpyF10VI	GCNNNNNNNGC	2 cut(s)	602, 953
HpyF3I	CTNAG	3 cut(s)	28, 655, 1150
HpySE526I	ACGT	2 cut(s)	456, 1013
Hsp92II	CATG	3 cut(s)	473, 808, 1140
Ksp22I	TGATCA	1 cut(s)	207
Kzo9I	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
LmnI	GCTCC	4 cut(s)	175, 253, 801, 975
Lsp1109I	GCAGC	1 cut(s)	1091
LweI	GCATC	5 cut(s)	57, 157, 362, 400, 592
MaeI	CTAG	1 cut(s)	483
MaeII	ACGT	2 cut(s)	456, 1013
MaeIII	GTNAC	4 cut(s)	268, 689, 863, 1061
MalI	GATC	6 cut(s)	209, 342, 429, 746, 927, 996
MbiI	CCGCTC	1 cut(s)	154
MboI	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
MboII	GAAGA	4 cut(s)	516, 824, 1088, 1133
MfeI	CAATTG	1 cut(s)	386
MflI	RGATCY	2 cut(s)	427, 744
MhlI	GDGCHC	3 cut(s)	250, 786, 798
MluCI	AATT	8 cut(s)	4, 146, 311, 336, 360, 386, 507, 525
MlyI	GAGTC	1 cut(s)	1172
MmeI	TCCRAC	1 cut(s)	59
MnlI	CCTC	6 cut(s)	223, 411, 915, 922, 964, 1033
Mph1103I	ATGCAT	2 cut(s)	124, 607
MseI	TTAA	5 cut(s)	8, 132, 237, 314, 1058
MslI	CAYNNNNRTG	3 cut(s)	408, 789, 1151
MspI	CCGG	1 cut(s)	897
MspR9I	CCNGG	4 cut(s)	174, 201, 279, 800
MunI	CAATTG	1 cut(s)	386
Mva1269I	GAATGC	1 cut(s)	978
MvaI	CCWGG	4 cut(s)	174, 201, 279, 800
MvnI	CGCG	1 cut(s)	1020
MwoI	GCNNNNNNNGC	2 cut(s)	602, 953
NdeII	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
NlaIII	CATG	3 cut(s)	473, 808, 1140
NlaIV	GGNNCC	3 cut(s)	15, 249, 298
NmuCI	GTSAC	1 cut(s)	1061
NsiI	ATGCAT	2 cut(s)	124, 607
PctI	GAATGC	1 cut(s)	978
PfeI	GAWTC	2 cut(s)	262, 379
PflFI	GACNNNGTC	1 cut(s)	559
PfoI	TCCNGGA	1 cut(s)	172
PkrI	GCNGC	2 cut(s)	653, 1106
PleI	GAGTC	1 cut(s)	1171
PmaCI	CACGTG	1 cut(s)	457
PmlI	CACGTG	1 cut(s)	457
PpsI	GAGTC	1 cut(s)	1171
Ppu21I	YACGTR	1 cut(s)	457
PshBI	ATTAAT	1 cut(s)	314
PsiI	TTATAA	1 cut(s)	63
Psp124BI	GAGCTC	1 cut(s)	798
Psp6I	CCWGG	4 cut(s)	172, 199, 277, 798
PspCI	CACGTG	1 cut(s)	457
PspGI	CCWGG	4 cut(s)	172, 199, 277, 798
PspN4I	GGNNCC	3 cut(s)	15, 249, 298
PspPI	GGNCC	2 cut(s)	81, 176
PstI	CTGCAG	1 cut(s)	1109
PsuI	RGATCY	2 cut(s)	427, 744
PsyI	GACNNNGTC	1 cut(s)	559
RseI	CAYNNNNRTG	3 cut(s)	408, 789, 1151
SacI	GAGCTC	1 cut(s)	798
SaqAI	TTAA	5 cut(s)	8, 132, 237, 314, 1058
SatI	GCNGC	2 cut(s)	652, 1105
Sau3AI	GATC	6 cut(s)	207, 340, 427, 744, 925, 994
Sau96I	GGNCC	2 cut(s)	81, 176
SchI	GAGTC	1 cut(s)	1172
ScrFI	CCNGG	4 cut(s)	174, 201, 279, 800
SduI	GDGCHC	3 cut(s)	250, 786, 798
SfaNI	GCATC	5 cut(s)	57, 157, 362, 400, 592
SfcI	CTRYAG	2 cut(s)	645, 1105
SinI	GGWCC	2 cut(s)	81, 176
SmiMI	CAYNNNNRTG	3 cut(s)	408, 789, 1151
SmlI	CTYRAG	2 cut(s)	227, 673
SmoI	CTYRAG	2 cut(s)	227, 673
Sse9I	AATT	8 cut(s)	4, 146, 311, 336, 360, 386, 507, 525
SsiI	CCGC	2 cut(s)	154, 651
SspMI	CTAG	1 cut(s)	483
SstI	GAGCTC	1 cut(s)	798
StyD4I	CCNGG	4 cut(s)	172, 199, 277, 798
StyI	CCWWGG	2 cut(s)	482, 774
TaaI	ACNGT	2 cut(s)	559, 1070
TaiI	ACGT	2 cut(s)	459, 1016
TaqI	TCGA	2 cut(s)	680, 686
TaqII	GACCGA	1 cut(s)	902
TasI	AATT	8 cut(s)	4, 146, 311, 336, 360, 386, 507, 525
TauI	GCSGC	1 cut(s)	654
TfiI	GAWTC	2 cut(s)	262, 379
Tru1I	TTAA	5 cut(s)	8, 132, 237, 314, 1058
Tru9I	TTAA	5 cut(s)	8, 132, 237, 314, 1058
TscAI	CASTG	5 cut(s)	217, 248, 1098, 1122, 1158
TseFI	GTSAC	1 cut(s)	1061
TseI	GCWGC	1 cut(s)	1104
Tsp45I	GTSAC	1 cut(s)	1061
TspDTI	ATGAA	4 cut(s)	17, 371, 458, 975
TspGWI	ACGGA	1 cut(s)	558
TspRI	CASTG	5 cut(s)	217, 248, 1098, 1122, 1158
Tth111I	GACNNNGTC	1 cut(s)	559
VneI	GTGCAC	1 cut(s)	782
VpaK11BI	GGWCC	2 cut(s)	81, 176
VspI	ATTAAT	1 cut(s)	314
XapI	RAATTY	4 cut(s)	4, 146, 507, 525
XcmI	CCANNNNNNNNNTGG	2 cut(s)	340, 421
XmaJI	CCTAGG	1 cut(s)	482
XspI	CTAG	1 cut(s)	483
Zsp2I	ATGCAT	2 cut(s)	124, 607

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