Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0008572

Physical Location & Seq

Genomic Coordinates Reverse (-)

77950295 .. 77953561

Gene Structure 3267 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00056180.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

ATGTTGGAGATCGAGGTCAAGCTAGCTTCCAATTCCGATTCTCATATCATACGATATCATGAGGTTATAAACACAGTAAAGAGTGATTCTTTACTGCAGATCTTGTTCTGTAGAATTCAGCCATGCTCAAAAGTTCTGTTCTGCAATCCTGGATTGGTTACAGATGCATTGAGAAAAGAAGGACTAGAGTCTTCTAATCTCATTGTTGGAATAGACTTCACTAAAAGCAATGAATGGACAGGTATGAAGTCATTCAACAATCGAAGCCTACATGCCATTAGTGATGTACCTAATCCGTACGAAAAAGCTATCTCTATAATCGGAAAAACTTTGTCTCCCTTTGATGAAGACAACTTAATTCCTTGTTTTGGCTTTGGTGATGCTACCACTCATGATCAAGAGTCTGAAATTAAAGGGCCAACTTCTTATGGACCTGTAATTGAGGCTGCAATGGACATTGTTGAGAAAAGTGCTGGTCAATACCATGTGTTAGTTATCATTGCAGATGGCCAGGTTACAAGAAGCATCAATACCAACGACAAGGAATTGAGTCCACAAGAGGAGAAGACAATCAAAGCAATTGCAGATGCAAGTTCCTATCCACTCTCCATTATTCTTATTGGAGTTGGCGATGGTCCCTGGGAAGACATGAGAAAATTTGATGACAAGCTCCCTGCACGAGAATTCGATAATTTTCAGTTTGTTAATTTTACGGACATTATGGCTAAACAAACATCTGCCTCTGAGAAAGAGGCTGCTTTTGCTCTTGCTGCCCTCATGGAAGTCCCACTCCAGTATAAGGCAACTATCGAATTTGGTATTCTTGGACGTAAAACAGGGAAAGGGAAGAGAACAGTTCCACGCCCTCCACCAGTTCCATACGTTCATCGTCCACCTCCGACTCATGAACCAAGTGCAATCTCAGCACCCATAGGGAATGACCGCGATGAATTGGTCTGCCCGATATGCCTGACTAATGCAAAGGACCTGGCGTTTGGCTGTGGACACATGGCCTGCAGAGACTGTGGAGCAAGATTATCCAACTGTCACATATGCCGCCAGCCAATCCGCAGCCGTCTCAGGGTTTACTCTGGATAA

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:0005886 GO:0006464 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009308 GO:0009605 GO:0009607 GO:0009611 GO:0009617 GO:0009690 GO:0009719 GO:0009725 GO:0009753 GO:0009755 GO:0009850 GO:0009867 GO:0009987 GO:0010033 GO:0010817 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0023052 GO:0032446 GO:0032870 GO:0034754 GO:0036211 GO:0042221 GO:0042445 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:0046483 GO:0048519 GO:0048583 GO:0048585 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0065007 GO:0065008 GO:0070647 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0071704 GO:0071944 GO:0080134 GO:0080148 GO:0098542 GO:0140096 GO:1901564 GO:1901700 GO:1901701 GO:2000070

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Copine zf-C3HC4_3

Protein Analysis

365

Amino Acids

40.21

Weight (kDa)

5.89

Isoelectric Point (pI)

41.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	89 - 133	6.4e-12	Copine
Copine	PF07002	136 - 275	6.4e-42	Copine
zf-C3HC4_3	PF13920	317 - 358	1.2e-08	Zinc finger, C3HC4 type (RING finger)

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: OG0008572)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79380
fragaria_vesca	FvH4_3g13940 FvH4_3g13940 FvH4_3g13940 FvH4_3g13940
malus_domestica	MD05G1239600.v1.1 MD10G1217900.v1.1
prunus_persica	Prupe.4G126200_v2.0.a1 Prupe.4G126200_v2.0.a1
pyrus_communis	pycom05g21590 pycom10g18370
rosa_chinensis	RchiOBHm_Chr5g0023161
rosa_laevigata	RLG00000032704
rosa_multiflora	Rmu_sc0007300.1_g000015
rosa_roxburghii	Rroxscaffold_1G00056180
rosa_rugosa	Rorug05G0077700 Rorug05G0077700 Rorug05G0077700
rosa_samantha	Rh5AG163800 Rh5BG163100 Rh5CG178100 Rh5DG164500
rosa_wichuraiana	Rw5G014780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	68
AccII	CGCG	1 cut(s)	945
AciI	CCGC	3 cut(s)	943, 1057, 1069
AcoI	YGGCCR	1 cut(s)	508
AcsI	RAATTY	4 cut(s)	114, 656, 683, 812
AfaI	GTAC	2 cut(s)	288, 299
AfiI	CCNNNNNNNGG	3 cut(s)	368, 799, 1081
AgsI	TTSAA	1 cut(s)	256
AjnI	CCWGG	4 cut(s)	148, 510, 638, 987
AluBI	AGCT	4 cut(s)	22, 26, 308, 670
AluI	AGCT	4 cut(s)	22, 26, 308, 670
Alw26I	GTCTC	3 cut(s)	339, 1014, 1082
AlwNI	CAGNNNCTG	1 cut(s)	1023
AoxI	GGCC	3 cut(s)	416, 508, 1011
ApeKI	GCWGC	4 cut(s)	446, 755, 770, 1071
ApoI	RAATTY	4 cut(s)	114, 656, 683, 812
ArsI	GACNNNNNNTTYG	2 cut(s)	977, 1009
Asp700I	GAANNNNTTC	1 cut(s)	251
AspS9I	GGNCC	4 cut(s)	416, 431, 635, 985
AsuHPI	GGTGA	1 cut(s)	389
AsuNHI	GCTAGC	1 cut(s)	22
AvaII	GGWCC	3 cut(s)	431, 635, 985
BalI	TGGCCA	1 cut(s)	510
BarI	GAAGNNNNNNTAC	2 cut(s)	514, 546
BauI	CACGAG	1 cut(s)	678
BbsI	GAAGAC	4 cut(s)	183, 354, 572, 651
BbvI	GCAGC	4 cut(s)	433, 742, 757, 1083
BccI	CCATC	2 cut(s)	500, 626
BceAI	ACGGC	1 cut(s)	1059
BciT130I	CCWGG	4 cut(s)	150, 512, 640, 989
BclI	TGATCA	1 cut(s)	394
BcoDI	GTCTC	3 cut(s)	339, 1014, 1082
BfaI	CTAG	2 cut(s)	23, 185
BfmI	CTRYAG	3 cut(s)	95, 109, 1015
BglII	AGATCT	1 cut(s)	99
BisI	GCNGC	5 cut(s)	447, 756, 771, 1057, 1072
BlsI	GCNGC	5 cut(s)	448, 757, 772, 1058, 1073
Bme1390I	CCNGG	4 cut(s)	150, 512, 640, 989
Bme18I	GGWCC	3 cut(s)	431, 635, 985
BmgT120I	GGNCC	4 cut(s)	416, 431, 635, 985
BmiI	GGNNCC	1 cut(s)	637
BmrFI	CCNGG	4 cut(s)	150, 512, 640, 989
BmsI	GCATC	4 cut(s)	154, 370, 534, 577
BmtI	GCTAGC	1 cut(s)	26
BoxI	GACNNNNGTC	1 cut(s)	187
BpiI	GAAGAC	4 cut(s)	183, 354, 572, 651
BpmI	CTGGAG	1 cut(s)	776
BsaJI	CCNNGG	2 cut(s)	638, 639
BsaXI	ACNNNNNCTCC	2 cut(s)	319, 349
Bsc4I	CCNNNNNNNGG	3 cut(s)	368, 799, 1081
Bse1I	ACTGG	2 cut(s)	793, 872
Bse3DI	GCAATG	3 cut(s)	235, 456, 498
BseBI	CCWGG	4 cut(s)	150, 512, 640, 989
BseDI	CCNNGG	2 cut(s)	638, 639
BseLI	CCNNNNNNNGG	3 cut(s)	368, 799, 1081
BseMI	GCAATG	3 cut(s)	235, 456, 498
BseMII	CTCAG	3 cut(s)	735, 936, 1093
BseNI	ACTGG	2 cut(s)	793, 872
BseRI	GAGGAG	1 cut(s)	575
BseXI	GCAGC	4 cut(s)	433, 742, 757, 1083
BsgI	GTGCAG	1 cut(s)	660
Bsh1236I	CGCG	1 cut(s)	945
BshFI	GGCC	3 cut(s)	418, 510, 1013
BsiWI	CGTACG	1 cut(s)	297
BslFI	GGGAC	2 cut(s)	621, 770
BslI	CCNNNNNNNGG	3 cut(s)	368, 799, 1081
BsmAI	GTCTC	3 cut(s)	339, 1014, 1082
BsmBI	CGTCTC	1 cut(s)	1082
BsmFI	GGGAC	2 cut(s)	621, 770
BsnI	GGCC	3 cut(s)	418, 510, 1013
Bsp143I	GATC	3 cut(s)	9, 99, 394
BspACI	CCGC	3 cut(s)	943, 1057, 1069
BspANI	GGCC	3 cut(s)	418, 510, 1013
BspCNI	CTCAG	3 cut(s)	736, 935, 1092
BspFNI	CGCG	1 cut(s)	945
BspHI	TCATGA	3 cut(s)	58, 391, 904
BspLI	GGNNCC	1 cut(s)	637
BspMAI	CTGCAG	2 cut(s)	99, 1019
BspOI	GCTAGC	1 cut(s)	26
BsrDI	GCAATG	3 cut(s)	235, 456, 498
BsrI	ACTGG	2 cut(s)	793, 872
BssECI	CCNNGG	2 cut(s)	638, 639
BssMI	GATC	3 cut(s)	9, 99, 394
BssSI	CACGAG	1 cut(s)	678
Bst2BI	CACGAG	1 cut(s)	678
Bst2UI	CCWGG	4 cut(s)	150, 512, 640, 989
Bst4CI	ACNGT	4 cut(s)	76, 856, 1025, 1046
Bst6I	CTCTTC	1 cut(s)	842
BstC8I	GCNNGC	3 cut(s)	24, 1015, 1061
BstDEI	CTNAG	3 cut(s)	744, 922, 1079
BstFNI	CGCG	1 cut(s)	945
BstKTI	GATC	3 cut(s)	12, 102, 397
BstMAI	GTCTC	3 cut(s)	339, 1014, 1082
BstMBI	GATC	3 cut(s)	9, 99, 394
BstMWI	GCNNNNNNNGC	4 cut(s)	761, 770, 923, 966
BstNI	CCWGG	4 cut(s)	150, 512, 640, 989
BstNSI	RCATGY	1 cut(s)	275
BstPAI	GACNNNNGTC	1 cut(s)	187
BstSCI	CCNGG	4 cut(s)	148, 510, 638, 987
BstSFI	CTRYAG	3 cut(s)	95, 109, 1015
BstUI	CGCG	1 cut(s)	945
BstV1I	GCAGC	4 cut(s)	433, 742, 757, 1083
BstV2I	GAAGAC	4 cut(s)	183, 354, 572, 651
BstX2I	RGATCY	1 cut(s)	99
BstYI	RGATCY	1 cut(s)	99
BsuRI	GGCC	3 cut(s)	418, 510, 1013
BtgZI	GCGATG	2 cut(s)	645, 960
Cac8I	GCNNGC	3 cut(s)	24, 1015, 1061
CaiI	CAGNNNCTG	1 cut(s)	1023
CciI	TCATGA	3 cut(s)	58, 391, 904
Cfr13I	GGNCC	4 cut(s)	416, 431, 635, 985
Csp6I	GTAC	2 cut(s)	287, 298
CviAII	CATG	9 cut(s)	59, 123, 272, 392, 485, 649, 778, 905, 1009
CviQI	GTAC	2 cut(s)	287, 298
DdeI	CTNAG	3 cut(s)	744, 922, 1079
DpnI	GATC	3 cut(s)	11, 101, 396
DpnII	GATC	3 cut(s)	9, 99, 394
EaeI	YGGCCR	1 cut(s)	508
Eam1104I	CTCTTC	1 cut(s)	842
EarI	CTCTTC	1 cut(s)	842
Eco32I	GATATC	1 cut(s)	56
Eco47I	GGWCC	3 cut(s)	431, 635, 985
EcoO109I	RGGNCCY	1 cut(s)	985
EcoRI	GAATTC	2 cut(s)	114, 683
EcoRII	CCWGG	4 cut(s)	148, 510, 638, 987
EcoRV	GATATC	1 cut(s)	56
EcoT22I	ATGCAT	1 cut(s)	169
Esp3I	CGTCTC	1 cut(s)	1082
FaeI	CATG	9 cut(s)	62, 126, 275, 395, 488, 652, 781, 908, 1012
FaqI	GGGAC	2 cut(s)	621, 770
FatI	CATG	9 cut(s)	58, 122, 271, 391, 484, 648, 777, 904, 1008
FauNDI	CATATG	1 cut(s)	1052
FbaI	TGATCA	1 cut(s)	394
Fnu4HI	GCNGC	5 cut(s)	447, 756, 771, 1057, 1072
Fsp4HI	GCNGC	5 cut(s)	447, 756, 771, 1057, 1072
FspBI	CTAG	2 cut(s)	23, 185
GluI	GCNGC	5 cut(s)	447, 756, 771, 1057, 1072
GsuI	CTGGAG	1 cut(s)	776
HaeIII	GGCC	3 cut(s)	418, 510, 1013
Hin1II	CATG	9 cut(s)	62, 126, 275, 395, 488, 652, 781, 908, 1012
HinfI	GANTC	6 cut(s)	38, 86, 188, 401, 550, 901
HphI	GGTGA	1 cut(s)	389
Hpy166II	GTNNAC	4 cut(s)	554, 893, 1004, 1087
Hpy188I	TCNGA	5 cut(s)	37, 323, 406, 745, 900
Hpy188III	TCNNGA	5 cut(s)	59, 392, 398, 905, 1092
Hpy8I	GTNNAC	4 cut(s)	554, 893, 1004, 1087
HpyAV	CCTTC	1 cut(s)	173
HpyCH4III	ACNGT	4 cut(s)	76, 856, 1025, 1046
HpyCH4IV	ACGT	2 cut(s)	829, 882
HpyF10VI	GCNNNNNNNGC	4 cut(s)	761, 770, 923, 966
HpyF3I	CTNAG	3 cut(s)	744, 922, 1079
HpySE526I	ACGT	2 cut(s)	829, 882
Hsp92II	CATG	9 cut(s)	62, 126, 275, 395, 488, 652, 781, 908, 1012
Ksp22I	TGATCA	1 cut(s)	394
Kzo9I	GATC	3 cut(s)	9, 99, 394
LmnI	GCTCC	2 cut(s)	675, 1028
Lsp1109I	GCAGC	4 cut(s)	433, 742, 757, 1083
LweI	GCATC	4 cut(s)	154, 370, 534, 577
MaeI	CTAG	2 cut(s)	23, 185
MaeII	ACGT	2 cut(s)	829, 882
MaeIII	GTNAC	3 cut(s)	157, 514, 1046
MalI	GATC	3 cut(s)	11, 101, 396
MboI	GATC	3 cut(s)	9, 99, 394
MboII	GAAGA	5 cut(s)	183, 359, 577, 656, 859
MfeI	CAATTG	1 cut(s)	579
MflI	RGATCY	1 cut(s)	99
MlsI	TGGCCA	1 cut(s)	510
MluNI	TGGCCA	1 cut(s)	510
MlyI	GAGTC	4 cut(s)	197, 410, 559, 895
MmeI	TCCRAC	3 cut(s)	187, 923, 1065
MnlI	CCTC	9 cut(s)	7, 55, 436, 553, 745, 751, 785, 876, 906
Mox20I	TGGCCA	1 cut(s)	510
Mph1103I	ATGCAT	1 cut(s)	169
MroXI	GAANNNNTTC	1 cut(s)	251
MscI	TGGCCA	1 cut(s)	510
MseI	TTAA	3 cut(s)	356, 411, 705
Msp20I	TGGCCA	1 cut(s)	510
MspR9I	CCNGG	4 cut(s)	150, 512, 640, 989
MunI	CAATTG	1 cut(s)	579
MvaI	CCWGG	4 cut(s)	150, 512, 640, 989
MvnI	CGCG	1 cut(s)	945
MwoI	GCNNNNNNNGC	4 cut(s)	761, 770, 923, 966
NdeI	CATATG	1 cut(s)	1052
NdeII	GATC	3 cut(s)	9, 99, 394
NheI	GCTAGC	1 cut(s)	22
NlaIII	CATG	9 cut(s)	62, 126, 275, 395, 488, 652, 781, 908, 1012
NlaIV	GGNNCC	1 cut(s)	637
NmuCI	GTSAC	1 cut(s)	1046
NsiI	ATGCAT	1 cut(s)	169
NspI	RCATGY	1 cut(s)	275
PagI	TCATGA	3 cut(s)	58, 391, 904
PasI	CCCWGGG	1 cut(s)	639
PdmI	GAANNNNTTC	1 cut(s)	251
PfeI	GAWTC	2 cut(s)	38, 86
Pfl23II	CGTACG	1 cut(s)	297
PfoI	TCCNGGA	1 cut(s)	148
PkrI	GCNGC	5 cut(s)	448, 757, 772, 1058, 1073
PleI	GAGTC	4 cut(s)	196, 409, 558, 895
PpsI	GAGTC	4 cut(s)	196, 409, 558, 895
PpuMI	RGGWCCY	1 cut(s)	985
PshAI	GACNNNNGTC	1 cut(s)	187
PsiI	TTATAA	1 cut(s)	68
Psp5II	RGGWCCY	1 cut(s)	985
Psp6I	CCWGG	4 cut(s)	148, 510, 638, 987
PspGI	CCWGG	4 cut(s)	148, 510, 638, 987
PspLI	CGTACG	1 cut(s)	297
PspN4I	GGNNCC	1 cut(s)	637
PspPI	GGNCC	4 cut(s)	416, 431, 635, 985
PspPPI	RGGWCCY	1 cut(s)	985
PstI	CTGCAG	2 cut(s)	99, 1019
PstNI	CAGNNNCTG	1 cut(s)	1023
PsuI	RGATCY	1 cut(s)	99
RsaI	GTAC	2 cut(s)	288, 299
RsaNI	GTAC	2 cut(s)	287, 298
SaqAI	TTAA	3 cut(s)	356, 411, 705
SatI	GCNGC	5 cut(s)	447, 756, 771, 1057, 1072
Sau3AI	GATC	3 cut(s)	9, 99, 394
Sau96I	GGNCC	4 cut(s)	416, 431, 635, 985
SchI	GAGTC	4 cut(s)	197, 410, 559, 895
ScrFI	CCNGG	4 cut(s)	150, 512, 640, 989
SfaNI	GCATC	4 cut(s)	154, 370, 534, 577
SfcI	CTRYAG	3 cut(s)	95, 109, 1015
SinI	GGWCC	3 cut(s)	431, 635, 985
SsiI	CCGC	3 cut(s)	943, 1057, 1069
SspMI	CTAG	2 cut(s)	23, 185
StyD4I	CCNGG	4 cut(s)	148, 510, 638, 987
TaaI	ACNGT	4 cut(s)	76, 856, 1025, 1046
TaiI	ACGT	2 cut(s)	832, 885
TaqI	TCGA	4 cut(s)	12, 262, 687, 810
TauI	GCSGC	1 cut(s)	1059
TfiI	GAWTC	2 cut(s)	38, 86
Tru1I	TTAA	3 cut(s)	356, 411, 705
Tru9I	TTAA	3 cut(s)	356, 411, 705
TseFI	GTSAC	1 cut(s)	1046
TseI	GCWGC	4 cut(s)	446, 755, 770, 1071
Tsp45I	GTSAC	1 cut(s)	1046
TspDTI	ATGAA	6 cut(s)	246, 260, 360, 875, 921, 963
TspGWI	ACGGA	2 cut(s)	285, 728
VpaK11BI	GGWCC	3 cut(s)	431, 635, 985
XapI	RAATTY	4 cut(s)	114, 656, 683, 812
XceI	RCATGY	1 cut(s)	275
XmnI	GAANNNNTTC	1 cut(s)	251
XspI	CTAG	2 cut(s)	23, 185
Zsp2I	ATGCAT	1 cut(s)	169

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