Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0005125

Physical Location & Seq

Genomic Coordinates Forward (+)

54820751 .. 54827755

Gene Structure 7005 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00121990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1224 bp

ATGGGGAATGGCGAATCGACATATGATGATTCTCATGATAATTTATCGATGTATGATGATTCTCATGATAGTTTCCCACCTGAACCACCTTCCTATGCAGGCACTTCGATGGAGTCTAGTTCTAAACAAAAGCGACCATCTGCACGTATAGGCGACAATTTCAACTCTTTGGATCAGGTTATTGCTTCATTGAGAGAAGCTGGCCTTGAATCATCAAATTTAATACTTGGTATCGACTTCACAAAGAGCAATGAATGGACAGGCAAATATTCATTCAACAGAAAAAGTCTTCATGCTATCAGTAGCACACCTAATCCTTACGAGCAAGCAATCTCTATAATTGGCCGCACTTTGTCTCCTTTCGATGAAGATGATATAATTCCTTGTTTTGGATTTGGCGATGCATCAACACATGATCAAGGTGTGTTCCGCTTTTATCCTGATGATCGATGCTGTGTTGGGTTCGAGGAAGCTCTTGCTCGGTATAGGGAGATTGTTCCATACTTAAGGTTATCAGGTCCAACCTCGTTTGCCCCAATAATTGATGCGGCAATTGACATTGTTGAAAAAAGCAATGGACAATACCATGTTCTTGTCATTATAGCAGATGGACAGGTTACCAGAAACCCTGATACTCCACCTGGAAGATTCAGTGCCCAAGAACAAGCGACTGTAAATTCCATAGTTGCTGCTAGCAAATATCCTTTGTCAATTATCTTGGTTGGAGTTGGGGACGGACCGTGGGATGCAATGCAGCAATTTGATGATAACATTCCTCAACGAGCATTTGACAACTTCCAGTTTGTCAACTTCACCAAGATCATGTCAGACAACAGGGATATATCACAGAAGGAAGCAGCATTTGCACTTGCTGCCCTTATGGAAATTCCATATCAGTACGGAGCCACCCAAAGGCTTCAACTTTCCAGGTATGAATCAGAAGGTGGTCCACGTACAAGGCCACTTCCACCTCCACGCGATGTGATCAATCATGATAATGCAGTTAAATCAATCCCACCAATGACAAGCATTCCGAAAGTCGAGGCATCAGCTCCCGTGCTGCCAGAAGCTCCTGTGGAGTCGGTGTGCCCCATTTGCCTGACAAATCCAAAGGACATGGCTTTCGGATGTGGTCATACGACCTGCAAGGACTGTGGAGTCAGTCTTTCATCATGCCCTATCTGTCGAGAACCCATATCAACACGCCTGAGACTCTATACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009867 GO:0009987 GO:0010033 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023052 GO:0032446 GO:0032870 GO:0036211 GO:0042221 GO:0042742 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065007 GO:0070647 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071704 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:1901701

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Copine zf-C3HC4_3

Protein Analysis

407

Amino Acids

44.73

Weight (kDa)

4.84

Isoelectric Point (pI)

36.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	96 - 307	1.1e-71	Copine
zf-C3HC4_3	PF13920	361 - 401	2.2e-09	Zinc finger, C3HC4 type (RING finger)

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: OG0005125)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G63970 AT5G63970
fragaria_vesca	FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670 FvH4_1g24670
malus_domestica	MD16G1282700.v1.1
prunus_persica	Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1 Prupe.4G273300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0122151
rosa_laevigata	RLG00000018654
rosa_multiflora	Rmu_sc0000805.1_g000043 Rmu_sc0004574.1_g000050
rosa_roxburghii	Rroxscaffold_2G00121990
rosa_rugosa	Rorug02G0236600
rosa_samantha	Rh2AG293400 Rh2BG303800 Rh2CG282100 Rh2DG317300
rosa_wichuraiana	Rw2G023520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1157
Acc36I	ACCTGC	1 cut(s)	1151
AccII	CGCG	1 cut(s)	978
AciI	CCGC	3 cut(s)	346, 430, 548
AclWI	GGATC	1 cut(s)	180
AcoI	YGGCCR	1 cut(s)	343
AcsI	RAATTY	3 cut(s)	217, 676, 885
AfaI	GTAC	2 cut(s)	899, 955
AfiI	CCNNNNNNNGG	2 cut(s)	389, 912
AflII	CTTAAG	1 cut(s)	505
AgsI	TTSAA	5 cut(s)	163, 209, 277, 566, 920
AjnI	CCWGG	2 cut(s)	640, 926
AluBI	AGCT	4 cut(s)	200, 473, 1052, 1070
AluI	AGCT	4 cut(s)	200, 473, 1052, 1070
Alw26I	GTCTC	2 cut(s)	360, 1204
AlwI	GGATC	1 cut(s)	180
AoxI	GGCC	3 cut(s)	202, 343, 959
ApeKI	GCWGC	5 cut(s)	689, 754, 857, 872, 1060
ApoI	RAATTY	3 cut(s)	217, 676, 885
ArsI	GACNNNNNNTTYG	2 cut(s)	1106, 1138
AspS9I	GGNCC	3 cut(s)	518, 737, 947
AsuHPI	GGTGA	1 cut(s)	805
AsuNHI	GCTAGC	1 cut(s)	692
AvaII	GGWCC	3 cut(s)	518, 737, 947
BaeGI	GKGCMC	2 cut(s)	658, 1091
BbsI	GAAGAC	1 cut(s)	281
BbvI	GCAGC	5 cut(s)	676, 766, 859, 869, 1047
BccI	CCATC	3 cut(s)	103, 145, 602
BcgI	CGANNNNNNTGC	2 cut(s)	87, 121
BciT130I	CCWGG	2 cut(s)	642, 928
BclI	TGATCA	2 cut(s)	415, 984
BcoDI	GTCTC	2 cut(s)	360, 1204
BfaI	CTAG	2 cut(s)	117, 693
BfrI	CTTAAG	1 cut(s)	505
BfuAI	ACCTGC	1 cut(s)	1151
BisI	GCNGC	7 cut(s)	346, 549, 690, 755, 858, 873, 1061
BlsI	GCNGC	7 cut(s)	347, 550, 691, 756, 859, 874, 1062
Bme1390I	CCNGG	2 cut(s)	642, 928
Bme18I	GGWCC	3 cut(s)	518, 737, 947
BmgT120I	GGNCC	3 cut(s)	518, 737, 947
BmiI	GGNNCC	1 cut(s)	904
BmrFI	CCNGG	2 cut(s)	642, 928
BmsI	GCATC	6 cut(s)	391, 413, 440, 535, 736, 1055
BmtI	GCTAGC	1 cut(s)	696
BpiI	GAAGAC	1 cut(s)	281
Bsa29I	ATCGAT	2 cut(s)	47, 448
BsaAI	YACGTR	2 cut(s)	146, 953
BsaJI	CCNNGG	1 cut(s)	740
BsaXI	ACNNNNNCTCC	4 cut(s)	340, 370, 1070, 1100
Bsc4I	CCNNNNNNNGG	2 cut(s)	389, 912
Bse1I	ACTGG	1 cut(s)	799
Bse3DI	GCAATG	3 cut(s)	256, 580, 756
BseBI	CCWGG	2 cut(s)	642, 928
BseCI	ATCGAT	2 cut(s)	47, 448
BseDI	CCNNGG	1 cut(s)	740
BseGI	GGATG	2 cut(s)	751, 1133
BseLI	CCNNNNNNNGG	2 cut(s)	389, 912
BseMI	GCAATG	3 cut(s)	256, 580, 756
BseMII	CTCAG	1 cut(s)	1199
BseNI	ACTGG	1 cut(s)	799
BseSI	GKGCMC	2 cut(s)	658, 1091
BseXI	GCAGC	5 cut(s)	676, 766, 859, 869, 1047
BsgI	GTGCAG	1 cut(s)	126
Bsh1236I	CGCG	1 cut(s)	978
BshFI	GGCC	3 cut(s)	204, 345, 961
BshVI	ATCGAT	2 cut(s)	47, 448
BslFI	GGGAC	1 cut(s)	746
BslI	CCNNNNNNNGG	2 cut(s)	389, 912
BsmAI	GTCTC	2 cut(s)	360, 1204
BsmFI	GGGAC	1 cut(s)	746
BsmI	GAATGC	1 cut(s)	1029
BsnI	GGCC	3 cut(s)	204, 345, 961
Bsp1286I	GDGCHC	2 cut(s)	658, 1091
Bsp143I	GATC	5 cut(s)	172, 415, 445, 819, 984
BspACI	CCGC	3 cut(s)	346, 430, 548
BspANI	GGCC	3 cut(s)	204, 345, 961
BspCNI	CTCAG	1 cut(s)	1200
BspDI	ATCGAT	2 cut(s)	47, 448
BspFNI	CGCG	1 cut(s)	978
BspHI	TCATGA	3 cut(s)	34, 64, 991
BspLI	GGNNCC	1 cut(s)	904
BspMI	ACCTGC	1 cut(s)	1151
BspOI	GCTAGC	1 cut(s)	696
BspPI	GGATC	1 cut(s)	180
BspTI	CTTAAG	1 cut(s)	505
BsrDI	GCAATG	3 cut(s)	256, 580, 756
BsrI	ACTGG	1 cut(s)	799
BssECI	CCNNGG	1 cut(s)	740
BssMI	GATC	5 cut(s)	172, 415, 445, 819, 984
Bst2UI	CCWGG	2 cut(s)	642, 928
Bst4CI	ACNGT	3 cut(s)	673, 741, 1154
BstAFI	CTTAAG	1 cut(s)	505
BstAPI	GCANNNNNTGC	2 cut(s)	863, 872
BstBAI	YACGTR	2 cut(s)	146, 953
BstC8I	GCNNGC	4 cut(s)	100, 202, 327, 694
BstDEI	CTNAG	1 cut(s)	1208
BstDSI	CCRYGG	1 cut(s)	740
BstEII	GGTNACC	1 cut(s)	616
BstF5I	GGATG	2 cut(s)	751, 1133
BstFNI	CGCG	1 cut(s)	978
BstKTI	GATC	5 cut(s)	175, 418, 448, 822, 987
BstMAI	GTCTC	2 cut(s)	360, 1204
BstMBI	GATC	5 cut(s)	172, 415, 445, 819, 984
BstMWI	GCNNNNNNNGC	3 cut(s)	863, 872, 1095
BstNI	CCWGG	2 cut(s)	642, 928
BstPI	GGTNACC	1 cut(s)	616
BstSCI	CCNGG	2 cut(s)	640, 926
BstSLI	GKGCMC	2 cut(s)	658, 1091
BstUI	CGCG	1 cut(s)	978
BstV1I	GCAGC	5 cut(s)	676, 766, 859, 869, 1047
BstV2I	GAAGAC	1 cut(s)	281
Bsu15I	ATCGAT	2 cut(s)	47, 448
BsuRI	GGCC	3 cut(s)	204, 345, 961
BsuTUI	ATCGAT	2 cut(s)	47, 448
BtgI	CCRYGG	1 cut(s)	740
BtgZI	GCGATG	2 cut(s)	414, 993
BtsCI	GGATG	2 cut(s)	751, 1133
BtsIMutI	CAGTG	1 cut(s)	658
BveI	ACCTGC	1 cut(s)	1151
Cac8I	GCNNGC	4 cut(s)	100, 202, 327, 694
CciI	TCATGA	3 cut(s)	34, 64, 991
Cfr13I	GGNCC	3 cut(s)	518, 737, 947
ClaI	ATCGAT	2 cut(s)	47, 448
CpoI	CGGWCCG	1 cut(s)	737
Csp6I	GTAC	2 cut(s)	898, 954
CspCI	CAANNNNNGTGG	2 cut(s)	1135, 1170
CspI	CGGWCCG	1 cut(s)	737
CviAII	CATG	9 cut(s)	35, 65, 293, 413, 587, 823, 992, 1117, 1173
CviQI	GTAC	2 cut(s)	898, 954
DdeI	CTNAG	1 cut(s)	1208
DpnI	GATC	5 cut(s)	174, 417, 447, 821, 986
DpnII	GATC	5 cut(s)	172, 415, 445, 819, 984
DrdI	GACNNNNNNGTC	1 cut(s)	1157
DseDI	GACNNNNNNGTC	1 cut(s)	1157
EaeI	YGGCCR	1 cut(s)	343
Eco47I	GGWCC	3 cut(s)	518, 737, 947
Eco91I	GGTNACC	1 cut(s)	616
EcoO65I	GGTNACC	1 cut(s)	616
EcoRII	CCWGG	2 cut(s)	640, 926
EcoT22I	ATGCAT	1 cut(s)	406
FaeI	CATG	9 cut(s)	38, 68, 296, 416, 590, 826, 995, 1120, 1176
FalI	AAGNNNNNCTT	2 cut(s)	189, 221
FaqI	GGGAC	1 cut(s)	746
FatI	CATG	9 cut(s)	34, 64, 292, 412, 586, 822, 991, 1116, 1172
FauNDI	CATATG	1 cut(s)	22
FbaI	TGATCA	2 cut(s)	415, 984
Fnu4HI	GCNGC	7 cut(s)	346, 549, 690, 755, 858, 873, 1061
FokI	GGATG	2 cut(s)	758, 1140
Fsp4HI	GCNGC	7 cut(s)	346, 549, 690, 755, 858, 873, 1061
FspBI	CTAG	2 cut(s)	117, 693
GluI	GCNGC	7 cut(s)	346, 549, 690, 755, 858, 873, 1061
HaeIII	GGCC	3 cut(s)	204, 345, 961
Hin1II	CATG	9 cut(s)	38, 68, 296, 416, 590, 826, 995, 1120, 1176
HincII	GTYRAC	1 cut(s)	808
HindII	GTYRAC	1 cut(s)	808
HphI	GGTGA	1 cut(s)	805
Hpy166II	GTNNAC	2 cut(s)	808, 950
Hpy188I	TCNGA	4 cut(s)	829, 940, 1035, 1127
Hpy188III	TCNNGA	5 cut(s)	35, 65, 440, 992, 1187
Hpy8I	GTNNAC	2 cut(s)	808, 950
HpyAV	CCTTC	3 cut(s)	99, 844, 935
HpyCH4III	ACNGT	3 cut(s)	673, 741, 1154
HpyCH4IV	ACGT	2 cut(s)	145, 952
HpyCH4V	TGCA	8 cut(s)	98, 143, 404, 749, 754, 866, 1001, 1146
HpyF10VI	GCNNNNNNNGC	3 cut(s)	863, 872, 1095
HpyF3I	CTNAG	1 cut(s)	1208
HpySE526I	ACGT	2 cut(s)	145, 952
Hsp92II	CATG	9 cut(s)	38, 68, 296, 416, 590, 826, 995, 1120, 1176
Ksp22I	TGATCA	2 cut(s)	415, 984
Kzo9I	GATC	5 cut(s)	172, 415, 445, 819, 984
LmnI	GCTCC	3 cut(s)	902, 1057, 1075
Lsp1109I	GCAGC	5 cut(s)	676, 766, 859, 869, 1047
LweI	GCATC	6 cut(s)	391, 413, 440, 535, 736, 1055
MaeI	CTAG	2 cut(s)	117, 693
MaeII	ACGT	2 cut(s)	145, 952
MaeIII	GTNAC	1 cut(s)	616
MalI	GATC	5 cut(s)	174, 417, 447, 821, 986
MboI	GATC	5 cut(s)	172, 415, 445, 819, 984
MboII	GAAGA	3 cut(s)	281, 380, 657
MfeI	CAATTG	1 cut(s)	552
MhlI	GDGCHC	2 cut(s)	658, 1091
MlyI	GAGTC	4 cut(s)	122, 1088, 1167, 1206
MmeI	TCCRAC	2 cut(s)	545, 703
MnlI	CCTC	5 cut(s)	460, 535, 786, 981, 1036
Mph1103I	ATGCAT	1 cut(s)	406
MseI	TTAA	3 cut(s)	221, 506, 1005
MslI	CAYNNNNRTG	2 cut(s)	107, 996
MspCI	CTTAAG	1 cut(s)	505
MspR9I	CCNGG	2 cut(s)	642, 928
MunI	CAATTG	1 cut(s)	552
Mva1269I	GAATGC	1 cut(s)	1029
MvaI	CCWGG	2 cut(s)	642, 928
MvnI	CGCG	1 cut(s)	978
MwoI	GCNNNNNNNGC	3 cut(s)	863, 872, 1095
NdeI	CATATG	1 cut(s)	22
NdeII	GATC	5 cut(s)	172, 415, 445, 819, 984
NheI	GCTAGC	1 cut(s)	692
NlaIII	CATG	9 cut(s)	38, 68, 296, 416, 590, 826, 995, 1120, 1176
NlaIV	GGNNCC	1 cut(s)	904
NsiI	ATGCAT	1 cut(s)	406
PagI	TCATGA	3 cut(s)	34, 64, 991
PctI	GAATGC	1 cut(s)	1029
PfeI	GAWTC	6 cut(s)	14, 29, 59, 209, 648, 935
PkrI	GCNGC	7 cut(s)	347, 550, 691, 756, 859, 874, 1062
PleI	GAGTC	4 cut(s)	121, 1087, 1166, 1206
PpsI	GAGTC	4 cut(s)	121, 1087, 1166, 1206
Ppu21I	YACGTR	2 cut(s)	146, 953
Psp6I	CCWGG	2 cut(s)	640, 926
PspEI	GGTNACC	1 cut(s)	616
PspGI	CCWGG	2 cut(s)	640, 926
PspN4I	GGNNCC	1 cut(s)	904
PspPI	GGNCC	3 cut(s)	518, 737, 947
RsaI	GTAC	2 cut(s)	899, 955
RsaNI	GTAC	2 cut(s)	898, 954
RseI	CAYNNNNRTG	2 cut(s)	107, 996
Rsr2I	CGGWCCG	1 cut(s)	737
RsrII	CGGWCCG	1 cut(s)	737
SaqAI	TTAA	3 cut(s)	221, 506, 1005
SatI	GCNGC	7 cut(s)	346, 549, 690, 755, 858, 873, 1061
Sau3AI	GATC	5 cut(s)	172, 415, 445, 819, 984
Sau96I	GGNCC	3 cut(s)	518, 737, 947
SchI	GAGTC	4 cut(s)	122, 1088, 1167, 1206
ScrFI	CCNGG	2 cut(s)	642, 928
SduI	GDGCHC	2 cut(s)	658, 1091
SfaNI	GCATC	6 cut(s)	391, 413, 440, 535, 736, 1055
SinI	GGWCC	3 cut(s)	518, 737, 947
SmiMI	CAYNNNNRTG	2 cut(s)	107, 996
SmlI	CTYRAG	1 cut(s)	505
SmoI	CTYRAG	1 cut(s)	505
SsiI	CCGC	3 cut(s)	346, 430, 548
SspI	AATATT	1 cut(s)	269
SspMI	CTAG	2 cut(s)	117, 693
StyD4I	CCNGG	2 cut(s)	640, 926
TaaI	ACNGT	3 cut(s)	673, 741, 1154
TaiI	ACGT	2 cut(s)	148, 955
TaqI	TCGA	9 cut(s)	17, 47, 107, 234, 363, 448, 465, 1041, 1186
TauI	GCSGC	2 cut(s)	348, 551
TfiI	GAWTC	6 cut(s)	14, 29, 59, 209, 648, 935
Tru1I	TTAA	3 cut(s)	221, 506, 1005
Tru9I	TTAA	3 cut(s)	221, 506, 1005
TscAI	CASTG	1 cut(s)	658
TseI	GCWGC	5 cut(s)	689, 754, 857, 872, 1060
TspDTI	ATGAA	7 cut(s)	177, 261, 267, 281, 381, 948, 1158
TspGWI	ACGGA	2 cut(s)	750, 915
TspRI	CASTG	1 cut(s)	658
Vha464I	CTTAAG	1 cut(s)	505
VpaK11BI	GGWCC	3 cut(s)	518, 737, 947
XapI	RAATTY	3 cut(s)	217, 676, 885
XspI	CTAG	2 cut(s)	117, 693
Zsp2I	ATGCAT	1 cut(s)	406

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