Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0008572

Physical Location & Seq

Genomic Coordinates Forward (+)

17630239 .. 17636179

Gene Structure 5941 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG163800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1248 bp

ATGGGAAGCATGATGTCATTTTTCAAAAGCAGAAGCAGCAGCCGCTCACTATCAAGAAGCACAGCCAGCGACACTGGCGGCAGCGTGACTAGGAGAACGTCATCCTATGGTTCGAAGAAATCATCAAGCATGAGTAGTACCAGTGGTGATAAAGCTGCACATACAGGAACCCAGAAGAAGCACGAGTACGCATATATTCCTGATAACTTCACATCCATTGAACAGGTTACAGATGCATTGAGAAAAGAAGGACTAGAGTCTTCTAATCTCATTGTTGGAATAGACTTCACTAAAAGCAATGAATGGACAGGCATGAAGTCATTCAACAATCGAAGCCTACATGCCATTGGCGATGTACCTAATCCGTACGAAAAAGCTATCTCTATAATCGGAAAAACTTTGTCTCCCTTTGATGAAGACAACTTAATTCCTTGTTTTGGCTTTGGTGATGCTACCACTCATGATCAAGAGGTGTTCAGCTTTCACACTGATCATTCACCCTGTCATGGTTTCGAAGAAGTCTTGACCTGCTACAAAAGAATAGCTCCTACTTTACGATTATCAGGGCCAACTTCTTATGGACCTGTAATTGAGGCTGCAATGGACATTGTTGAGAAAAGTGCAGGTCAATACCATGTGTTAGTTATCATTGCAGATGGCCAGGTTACAAGGAGCATCAATACCAACGACAAGGAATTGAGTCCACAAGAGGAGAAGACAATCAAAGCAATTGCAGATGCAAGTTCCTATCCACTCTCCATTATTCTTATTGGAGTCGGCGATGGTCCCTGGGAAGACATGAGAAAATTTGATGACAAGCTCCCTGCACGAGAATTCGATAATTTTCAGTTTGTTAATTTTACGGACATTATGGCTAAACAAACATCTGCCTCTGAGAAAGAGGCTGCTTTTGCTCTTGCTGCCCTCATGGAAGTCCCACTCCAGTATAAGGCAACTATCGAATTTGGTATTCTTGGACGTAAAACAGGGAAAGGGAAGAGAACAGTTCCACGCCCTCCACCAGTTCCATACGTTCATCGTCCGCCTCCGACTCATGAACCAAGTGCAATCTCAGCACCCGTAGGGAATGACCGCGATGAATTGGTCTGCCCGATCTGCCTGACTAATGCAAAGGACCTGGCGTTTGGCTGTGGACACATGGCCTGCAGAGACTGTGGAGCAAGATTATCCAACTGTCACATATGCCGCCAGCCAATCCGCAGCCGTCTCAGGGTTTACTCTGGATAA

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

415

Amino Acids

45.44

Weight (kDa)

7.17

Isoelectric Point (pI)

46.49

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	112 - 325	3.3e-72	Copine
zf-C3HC4_3	PF13920	367 - 408	1.4e-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)
Acc36I	ACCTGC	2 cut(s)	536, 614
AccBSI	CCGCTC	1 cut(s)	45
AccII	CGCG	1 cut(s)	1095
AciI	CCGC	6 cut(s)	43, 78, 1043, 1093, 1207, 1219
AcoI	YGGCCR	1 cut(s)	658
AcsI	RAATTY	3 cut(s)	806, 833, 962
AfaI	GTAC	4 cut(s)	139, 188, 357, 368
AfiI	CCNNNNNNNGG	4 cut(s)	437, 506, 949, 1231
AgsI	TTSAA	3 cut(s)	25, 221, 325
AjnI	CCWGG	3 cut(s)	660, 788, 1137
AluBI	AGCT	5 cut(s)	155, 377, 480, 545, 820
AluI	AGCT	5 cut(s)	155, 377, 480, 545, 820
Alw26I	GTCTC	3 cut(s)	408, 1164, 1232
AlwNI	CAGNNNCTG	1 cut(s)	1173
AoxI	GGCC	3 cut(s)	566, 658, 1161
ApeKI	GCWGC	8 cut(s)	36, 39, 81, 155, 596, 905, 920, 1221
ApoI	RAATTY	3 cut(s)	806, 833, 962
ArsI	GACNNNNNNTTYG	2 cut(s)	1127, 1159
Asp700I	GAANNNNTTC	1 cut(s)	320
AspS9I	GGNCC	4 cut(s)	566, 581, 785, 1135
AsuHPI	GGTGA	3 cut(s)	158, 458, 489
AsuII	TTCGAA	2 cut(s)	113, 513
AvaII	GGWCC	3 cut(s)	581, 785, 1135
BalI	TGGCCA	1 cut(s)	660
BarI	GAAGNNNNNNTAC	2 cut(s)	170, 202
BauI	CACGAG	2 cut(s)	182, 828
BbsI	GAAGAC	4 cut(s)	252, 423, 722, 801
BbvI	GCAGC	8 cut(s)	48, 51, 93, 142, 583, 892, 907, 1233
BccI	CCATC	2 cut(s)	650, 776
BceAI	ACGGC	1 cut(s)	1209
BciT130I	CCWGG	3 cut(s)	662, 790, 1139
BclI	TGATCA	2 cut(s)	463, 490
BcoDI	GTCTC	3 cut(s)	408, 1164, 1232
BfaI	CTAG	2 cut(s)	90, 254
BfmI	CTRYAG	1 cut(s)	1165
BfuAI	ACCTGC	2 cut(s)	536, 614
Bme1390I	CCNGG	3 cut(s)	662, 790, 1139
Bme18I	GGWCC	3 cut(s)	581, 785, 1135
BmgT120I	GGNCC	4 cut(s)	566, 581, 785, 1135
BmiI	GGNNCC	2 cut(s)	169, 787
BmrFI	CCNGG	3 cut(s)	662, 790, 1139
BmsI	GCATC	4 cut(s)	223, 439, 684, 727
BoxI	GACNNNNGTC	1 cut(s)	256
BpiI	GAAGAC	4 cut(s)	252, 423, 722, 801
BpmI	CTGGAG	1 cut(s)	926
Bpu14I	TTCGAA	2 cut(s)	113, 513
BsaJI	CCNNGG	2 cut(s)	788, 789
BsaXI	ACNNNNNCTCC	2 cut(s)	388, 418
Bsc4I	CCNNNNNNNGG	4 cut(s)	437, 506, 949, 1231
Bse1I	ACTGG	4 cut(s)	79, 141, 943, 1022
Bse3DI	GCAATG	3 cut(s)	304, 606, 648
BseBI	CCWGG	3 cut(s)	662, 790, 1139
BseDI	CCNNGG	2 cut(s)	788, 789
BseGI	GGATG	2 cut(s)	101, 212
BseLI	CCNNNNNNNGG	4 cut(s)	437, 506, 949, 1231
BseMI	GCAATG	3 cut(s)	304, 606, 648
BseMII	CTCAG	3 cut(s)	885, 1086, 1243
BseNI	ACTGG	4 cut(s)	79, 141, 943, 1022
BseRI	GAGGAG	1 cut(s)	725
BseXI	GCAGC	8 cut(s)	48, 51, 93, 142, 583, 892, 907, 1233
BsgI	GTGCAG	3 cut(s)	141, 642, 810
Bsh1236I	CGCG	1 cut(s)	1095
BshFI	GGCC	3 cut(s)	568, 660, 1163
BsiWI	CGTACG	1 cut(s)	366
BslFI	GGGAC	2 cut(s)	771, 920
BslI	CCNNNNNNNGG	4 cut(s)	437, 506, 949, 1231
BsmAI	GTCTC	3 cut(s)	408, 1164, 1232
BsmBI	CGTCTC	1 cut(s)	1232
BsmFI	GGGAC	2 cut(s)	771, 920
BsnI	GGCC	3 cut(s)	568, 660, 1163
Bsp119I	TTCGAA	2 cut(s)	113, 513
Bsp143I	GATC	3 cut(s)	463, 490, 1113
BspACI	CCGC	6 cut(s)	43, 78, 1043, 1093, 1207, 1219
BspANI	GGCC	3 cut(s)	568, 660, 1163
BspCNI	CTCAG	3 cut(s)	886, 1085, 1242
BspFNI	CGCG	1 cut(s)	1095
BspHI	TCATGA	2 cut(s)	460, 1054
BspLI	GGNNCC	2 cut(s)	169, 787
BspMAI	CTGCAG	1 cut(s)	1169
BspMI	ACCTGC	2 cut(s)	536, 614
BspT104I	TTCGAA	2 cut(s)	113, 513
BsrBI	CCGCTC	1 cut(s)	45
BsrDI	GCAATG	3 cut(s)	304, 606, 648
BsrI	ACTGG	4 cut(s)	79, 141, 943, 1022
BssECI	CCNNGG	2 cut(s)	788, 789
BssMI	GATC	3 cut(s)	463, 490, 1113
BssSI	CACGAG	2 cut(s)	182, 828
Bst2BI	CACGAG	2 cut(s)	182, 828
Bst2UI	CCWGG	3 cut(s)	662, 790, 1139
Bst4CI	ACNGT	3 cut(s)	1006, 1175, 1196
Bst6I	CTCTTC	1 cut(s)	992
BstBI	TTCGAA	2 cut(s)	113, 513
BstC8I	GCNNGC	3 cut(s)	67, 1165, 1211
BstDEI	CTNAG	3 cut(s)	894, 1072, 1229
BstF5I	GGATG	2 cut(s)	101, 212
BstFNI	CGCG	1 cut(s)	1095
BstKTI	GATC	3 cut(s)	466, 493, 1116
BstMAI	GTCTC	3 cut(s)	408, 1164, 1232
BstMBI	GATC	3 cut(s)	463, 490, 1113
BstMWI	GCNNNNNNNGC	8 cut(s)	36, 42, 66, 75, 911, 920, 1073, 1116
BstNI	CCWGG	3 cut(s)	662, 790, 1139
BstNSI	RCATGY	1 cut(s)	344
BstPAI	GACNNNNGTC	1 cut(s)	256
BstSCI	CCNGG	3 cut(s)	660, 788, 1137
BstSFI	CTRYAG	1 cut(s)	1165
BstUI	CGCG	1 cut(s)	1095
BstV1I	GCAGC	8 cut(s)	48, 51, 93, 142, 583, 892, 907, 1233
BstV2I	GAAGAC	4 cut(s)	252, 423, 722, 801
BsuRI	GGCC	3 cut(s)	568, 660, 1163
BtgZI	GCGATG	3 cut(s)	366, 795, 1110
BtsCI	GGATG	2 cut(s)	101, 212
BtsIMutI	CAGTG	3 cut(s)	72, 148, 486
BveI	ACCTGC	2 cut(s)	536, 614
Cac8I	GCNNGC	3 cut(s)	67, 1165, 1211
CaiI	CAGNNNCTG	1 cut(s)	1173
CciI	TCATGA	2 cut(s)	460, 1054
Cfr13I	GGNCC	4 cut(s)	566, 581, 785, 1135
Csp6I	GTAC	4 cut(s)	138, 187, 356, 367
CviQI	GTAC	4 cut(s)	138, 187, 356, 367
DdeI	CTNAG	3 cut(s)	894, 1072, 1229
DpnI	GATC	3 cut(s)	465, 492, 1115
DpnII	GATC	3 cut(s)	463, 490, 1113
EaeI	YGGCCR	1 cut(s)	658
Eam1104I	CTCTTC	1 cut(s)	992
EarI	CTCTTC	1 cut(s)	992
EciI	GGCGGA	1 cut(s)	1032
Eco47I	GGWCC	3 cut(s)	581, 785, 1135
EcoO109I	RGGNCCY	1 cut(s)	1135
EcoRI	GAATTC	1 cut(s)	833
EcoRII	CCWGG	3 cut(s)	660, 788, 1137
EcoT22I	ATGCAT	1 cut(s)	238
Esp3I	CGTCTC	1 cut(s)	1232
FaqI	GGGAC	2 cut(s)	771, 920
FauNDI	CATATG	1 cut(s)	1202
FbaI	TGATCA	2 cut(s)	463, 490
FokI	GGATG	2 cut(s)	88, 199
FspBI	CTAG	2 cut(s)	90, 254
GsuI	CTGGAG	1 cut(s)	926
HaeIII	GGCC	3 cut(s)	568, 660, 1163
HinfI	GANTC	4 cut(s)	257, 700, 774, 1051
HphI	GGTGA	3 cut(s)	158, 458, 489
Hpy166II	GTNNAC	3 cut(s)	704, 1154, 1237
Hpy188I	TCNGA	3 cut(s)	392, 895, 1050
Hpy188III	TCNNGA	7 cut(s)	54, 200, 461, 467, 523, 1055, 1242
Hpy8I	GTNNAC	3 cut(s)	704, 1154, 1237
HpyAV	CCTTC	1 cut(s)	242
HpyCH4III	ACNGT	3 cut(s)	1006, 1175, 1196
HpyCH4IV	ACGT	3 cut(s)	98, 979, 1032
HpyF10VI	GCNNNNNNNGC	8 cut(s)	36, 42, 66, 75, 911, 920, 1073, 1116
HpyF3I	CTNAG	3 cut(s)	894, 1072, 1229
HpySE526I	ACGT	3 cut(s)	98, 979, 1032
Ksp22I	TGATCA	2 cut(s)	463, 490
Kzo9I	GATC	3 cut(s)	463, 490, 1113
LmnI	GCTCC	4 cut(s)	550, 672, 825, 1178
Lsp1109I	GCAGC	8 cut(s)	48, 51, 93, 142, 583, 892, 907, 1233
LweI	GCATC	4 cut(s)	223, 439, 684, 727
MaeI	CTAG	2 cut(s)	90, 254
MaeII	ACGT	3 cut(s)	98, 979, 1032
MaeIII	GTNAC	4 cut(s)	85, 226, 664, 1196
MalI	GATC	3 cut(s)	465, 492, 1115
MbiI	CCGCTC	1 cut(s)	45
MboI	GATC	3 cut(s)	463, 490, 1113
MboII	GAAGA	8 cut(s)	127, 187, 252, 428, 527, 727, 806, 1009
MfeI	CAATTG	1 cut(s)	729
MlsI	TGGCCA	1 cut(s)	660
MluNI	TGGCCA	1 cut(s)	660
MlyI	GAGTC	4 cut(s)	266, 709, 783, 1045
MmeI	TCCRAC	3 cut(s)	256, 1073, 1215
MnlI	CCTC	8 cut(s)	463, 586, 703, 895, 901, 935, 1026, 1056
Mox20I	TGGCCA	1 cut(s)	660
Mph1103I	ATGCAT	1 cut(s)	238
MroXI	GAANNNNTTC	1 cut(s)	320
MscI	TGGCCA	1 cut(s)	660
MseI	TTAA	2 cut(s)	425, 855
Msp20I	TGGCCA	1 cut(s)	660
MspR9I	CCNGG	3 cut(s)	662, 790, 1139
MunI	CAATTG	1 cut(s)	729
MvaI	CCWGG	3 cut(s)	662, 790, 1139
MvnI	CGCG	1 cut(s)	1095
MwoI	GCNNNNNNNGC	8 cut(s)	36, 42, 66, 75, 911, 920, 1073, 1116
NdeI	CATATG	1 cut(s)	1202
NdeII	GATC	3 cut(s)	463, 490, 1113
NlaIV	GGNNCC	2 cut(s)	169, 787
NmuCI	GTSAC	2 cut(s)	85, 1196
NsiI	ATGCAT	1 cut(s)	238
NspI	RCATGY	1 cut(s)	344
NspV	TTCGAA	2 cut(s)	113, 513
PagI	TCATGA	2 cut(s)	460, 1054
PasI	CCCWGGG	1 cut(s)	789
PdmI	GAANNNNTTC	1 cut(s)	320
Pfl23II	CGTACG	1 cut(s)	366
PleI	GAGTC	4 cut(s)	265, 708, 782, 1045
PpsI	GAGTC	4 cut(s)	265, 708, 782, 1045
PpuMI	RGGWCCY	1 cut(s)	1135
PshAI	GACNNNNGTC	1 cut(s)	256
Psp5II	RGGWCCY	1 cut(s)	1135
Psp6I	CCWGG	3 cut(s)	660, 788, 1137
PspGI	CCWGG	3 cut(s)	660, 788, 1137
PspLI	CGTACG	1 cut(s)	366
PspN4I	GGNNCC	2 cut(s)	169, 787
PspPI	GGNCC	4 cut(s)	566, 581, 785, 1135
PspPPI	RGGWCCY	1 cut(s)	1135
PstI	CTGCAG	1 cut(s)	1169
PstNI	CAGNNNCTG	1 cut(s)	1173
RsaI	GTAC	4 cut(s)	139, 188, 357, 368
RsaNI	GTAC	4 cut(s)	138, 187, 356, 367
SaqAI	TTAA	2 cut(s)	425, 855
Sau3AI	GATC	3 cut(s)	463, 490, 1113
Sau96I	GGNCC	4 cut(s)	566, 581, 785, 1135
SchI	GAGTC	4 cut(s)	266, 709, 783, 1045
ScrFI	CCNGG	3 cut(s)	662, 790, 1139
SfaNI	GCATC	4 cut(s)	223, 439, 684, 727
SfcI	CTRYAG	1 cut(s)	1165
SfuI	TTCGAA	2 cut(s)	113, 513
SinI	GGWCC	3 cut(s)	581, 785, 1135
SsiI	CCGC	6 cut(s)	43, 78, 1043, 1093, 1207, 1219
SspMI	CTAG	2 cut(s)	90, 254
StyD4I	CCNGG	3 cut(s)	660, 788, 1137
TaaI	ACNGT	3 cut(s)	1006, 1175, 1196
TaiI	ACGT	3 cut(s)	101, 982, 1035
TaqI	TCGA	5 cut(s)	113, 331, 513, 837, 960
TauI	GCSGC	3 cut(s)	45, 81, 1209
Tru1I	TTAA	2 cut(s)	425, 855
Tru9I	TTAA	2 cut(s)	425, 855
TscAI	CASTG	3 cut(s)	79, 148, 493
TseFI	GTSAC	2 cut(s)	85, 1196
TseI	GCWGC	8 cut(s)	36, 39, 81, 155, 596, 905, 920, 1221
Tsp45I	GTSAC	2 cut(s)	85, 1196
TspDTI	ATGAA	6 cut(s)	315, 329, 429, 1025, 1071, 1113
TspGWI	ACGGA	2 cut(s)	354, 878
TspRI	CASTG	3 cut(s)	79, 148, 493
VpaK11BI	GGWCC	3 cut(s)	581, 785, 1135
XapI	RAATTY	3 cut(s)	806, 833, 962
XceI	RCATGY	1 cut(s)	344
XmnI	GAANNNNTTC	1 cut(s)	320
XspI	CTAG	2 cut(s)	90, 254
Zsp2I	ATGCAT	1 cut(s)	238

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