Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0005125

Physical Location & Seq

Genomic Coordinates Reverse (-)

33352111 .. 33361056

Gene Structure 8946 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000018654

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1389 bp

ATGGTTTCTGATAATGTGGAGGATGTGAACAATGTTCTCTCTCATGTCCTCTTAACTAAAAATAGAATCAAGAACGAGAAAAAGTTAAGCACCAATATTGTTACAACAATCAATCCCCTTTCATCTCTGCTTCAACATATCACAGGTACCATCTACCTCCCAAACATGGGGAATGGCGAATCGACGTATAATGATTCTCGTGATAATTTATGGACGTATGATGATTCTCATGATAGTTTCCCACCTGAACCACCTTCCTATGCAGGCACTTCGATGGACTCCAGTTCTAAACAAAAGCTACCATCTACACGTATAGGCGACAATTTCAACTCTTTGGATCAGGTTATTGCTTCATTGAGAGAAGCTGGCCTTGAATCATCAAATTTAATACTTGGTATTGACTTCACAAAGAGCAATGAATGGACAGGCAAATATTCATTCAACAGAAAAAGTCTTCATGCTATTGGTAGCACACCGAATCCTTACGAGCAAGCAATCTCTATAATTGGCCGCACTTTGTCTCCTTTCGATGAAGATAATATAATTCCTTGTTTTGGATTTGGTGATGCATCAACACATGATCAAGATGTGTTCCGCTTTTATCCTGATGATCGATGCTGTGTTGGGTTCGAGGAAGCTCTTGCTCGGTATAGGGAGATTGTTCCATACTTAAGGTTATCAGGTCCAACCTCGTTTGCCCCAATAATTGATGCGGCAATTGACATTGTTGAAAAAAGCAATGGACAATACCATGTTCTTGTCATTATAGCAGACGGACAGGTTACCAGAAGCCCTGATACTCCACCTGGAAGATTCAGTGCCCAGGAACAAGCGACTGTAAATTCCATAGTTGCTGCTAGCAAATATCCTTTGTCAATTATATTGGTTGGAGTTGGGGACGGACCATGGGATGCAATGCAGCAATTTGATGATAACATTCCTCAACGAGCATTTGACAACTTCCAGTTTGTCAACTTCACCAAGATCATGTCAGACAACAGGGATATATCACAGAAGGAAGCAGCATTTGCACTTGCTGCCCTTATGGAAATTCCATATCAGTACAGAGCCACCCAAAGGCTTCAACTTTCCAGTTATGAATCAGAAGGTGGTCCACGTAAAAGGCCACTTCCACCTCCACGCGATGTGATCAATCATGATAATGCAGTTAAATCAATCCCACCAAAGACAAGCATTCCAAATGCCGAGCCATCAGCTCCCGTGCTGCCAGAAACTCCTGTGGAGTCGGTGTGCCCCATTTGCTTGACAAATCCAAAGGACATGGCTTTCGGATGTGGTCATACGACCTGCAAGGACTGTGGAGTCAGTCTTTCATCATGCCCTATCTGTCGAGAACCCATATCAACACGCCTGAGACTCTATACTTGA

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

463

Amino Acids

50.98

Weight (kDa)

5.09

Isoelectric Point (pI)

38.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	151 - 362	5.9e-72	Copine
zf-C3HC4_3	PF13920	416 - 456	2.7e-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)	1322
Acc36I	ACCTGC	1 cut(s)	1316
Acc65I	GGTACC	1 cut(s)	146
AccB1I	GGYRCC	1 cut(s)	146
AccII	CGCG	1 cut(s)	1143
AciI	CCGC	3 cut(s)	511, 595, 713
AclWI	GGATC	1 cut(s)	345
AcoI	YGGCCR	1 cut(s)	508
AcsI	RAATTY	3 cut(s)	382, 841, 1050
AfaI	GTAC	2 cut(s)	148, 1064
AfiI	CCNNNNNNNGG	4 cut(s)	166, 167, 554, 1077
AflII	CTTAAG	1 cut(s)	670
AflIII	ACRYGT	1 cut(s)	308
AgsI	TTSAA	6 cut(s)	134, 328, 374, 442, 731, 1085
AjnI	CCWGG	2 cut(s)	805, 822
AluBI	AGCT	4 cut(s)	298, 365, 638, 1217
AluI	AGCT	4 cut(s)	298, 365, 638, 1217
Alw26I	GTCTC	2 cut(s)	525, 1369
AlwI	GGATC	1 cut(s)	345
AoxI	GGCC	3 cut(s)	367, 508, 1124
ApeKI	GCWGC	5 cut(s)	854, 919, 1022, 1037, 1225
ApoI	RAATTY	3 cut(s)	382, 841, 1050
ArsI	GACNNNNNNTTYG	2 cut(s)	1271, 1303
Asp718I	GGTACC	1 cut(s)	146
AspS9I	GGNCC	3 cut(s)	683, 902, 1112
AsuHPI	GGTGA	2 cut(s)	575, 970
AsuNHI	GCTAGC	1 cut(s)	857
AvaII	GGWCC	3 cut(s)	683, 902, 1112
BaeGI	GKGCMC	2 cut(s)	823, 1256
BanI	GGYRCC	1 cut(s)	146
BarI	GAAGNNNNNNTAC	2 cut(s)	781, 813
BauI	CACGAG	1 cut(s)	198
BbsI	GAAGAC	1 cut(s)	446
BbvI	GCAGC	5 cut(s)	841, 931, 1024, 1034, 1212
BccI	CCATC	4 cut(s)	158, 268, 310, 1219
BcgI	CGANNNNNNTGC	2 cut(s)	252, 286
BciT130I	CCWGG	2 cut(s)	807, 824
BclI	TGATCA	2 cut(s)	580, 1149
BcoDI	GTCTC	2 cut(s)	525, 1369
BfaI	CTAG	1 cut(s)	858
BfrI	CTTAAG	1 cut(s)	670
BfuAI	ACCTGC	1 cut(s)	1316
BisI	GCNGC	7 cut(s)	511, 714, 855, 920, 1023, 1038, 1226
BlsI	GCNGC	7 cut(s)	512, 715, 856, 921, 1024, 1039, 1227
Bme1390I	CCNGG	2 cut(s)	807, 824
Bme18I	GGWCC	3 cut(s)	683, 902, 1112
BmgT120I	GGNCC	3 cut(s)	683, 902, 1112
BmiI	GGNNCC	1 cut(s)	148
BmrFI	CCNGG	2 cut(s)	807, 824
BmsI	GCATC	5 cut(s)	556, 578, 605, 700, 901
BmtI	GCTAGC	1 cut(s)	861
BpiI	GAAGAC	1 cut(s)	446
BpmI	CTGGAG	1 cut(s)	265
Bsa29I	ATCGAT	1 cut(s)	613
BsaAI	YACGTR	2 cut(s)	311, 1118
BsaJI	CCNNGG	2 cut(s)	822, 905
BsaXI	ACNNNNNCTCC	4 cut(s)	505, 535, 1235, 1265
Bsc4I	CCNNNNNNNGG	4 cut(s)	166, 167, 554, 1077
Bse1I	ACTGG	3 cut(s)	282, 964, 1092
Bse3DI	GCAATG	3 cut(s)	421, 745, 921
BseBI	CCWGG	2 cut(s)	807, 824
BseCI	ATCGAT	1 cut(s)	613
BseDI	CCNNGG	2 cut(s)	822, 905
BseGI	GGATG	3 cut(s)	28, 916, 1298
BseLI	CCNNNNNNNGG	4 cut(s)	166, 167, 554, 1077
BseMI	GCAATG	3 cut(s)	421, 745, 921
BseMII	CTCAG	1 cut(s)	1364
BseNI	ACTGG	3 cut(s)	282, 964, 1092
BseSI	GKGCMC	2 cut(s)	823, 1256
BseXI	GCAGC	5 cut(s)	841, 931, 1024, 1034, 1212
Bsh1236I	CGCG	1 cut(s)	1143
BshFI	GGCC	3 cut(s)	369, 510, 1126
BshNI	GGYRCC	1 cut(s)	146
BshVI	ATCGAT	1 cut(s)	613
BslFI	GGGAC	1 cut(s)	911
BslI	CCNNNNNNNGG	4 cut(s)	166, 167, 554, 1077
BsmAI	GTCTC	2 cut(s)	525, 1369
BsmFI	GGGAC	1 cut(s)	911
BsmI	GAATGC	1 cut(s)	1194
BsnI	GGCC	3 cut(s)	369, 510, 1126
Bsp1286I	GDGCHC	2 cut(s)	823, 1256
Bsp143I	GATC	5 cut(s)	337, 580, 610, 984, 1149
Bsp19I	CCATGG	1 cut(s)	905
BspACI	CCGC	3 cut(s)	511, 595, 713
BspANI	GGCC	3 cut(s)	369, 510, 1126
BspCNI	CTCAG	1 cut(s)	1365
BspDI	ATCGAT	1 cut(s)	613
BspFNI	CGCG	1 cut(s)	1143
BspHI	TCATGA	2 cut(s)	229, 1156
BspLI	GGNNCC	1 cut(s)	148
BspMI	ACCTGC	1 cut(s)	1316
BspOI	GCTAGC	1 cut(s)	861
BspPI	GGATC	1 cut(s)	345
BspT107I	GGYRCC	1 cut(s)	146
BspTI	CTTAAG	1 cut(s)	670
BsrDI	GCAATG	3 cut(s)	421, 745, 921
BsrI	ACTGG	3 cut(s)	282, 964, 1092
BssECI	CCNNGG	2 cut(s)	822, 905
BssMI	GATC	5 cut(s)	337, 580, 610, 984, 1149
BssSI	CACGAG	1 cut(s)	198
BssT1I	CCWWGG	1 cut(s)	905
Bst2BI	CACGAG	1 cut(s)	198
Bst2UI	CCWGG	2 cut(s)	807, 824
Bst4CI	ACNGT	2 cut(s)	838, 1319
BstAFI	CTTAAG	1 cut(s)	670
BstAPI	GCANNNNNTGC	2 cut(s)	1028, 1037
BstBAI	YACGTR	2 cut(s)	311, 1118
BstC8I	GCNNGC	4 cut(s)	265, 367, 492, 859
BstDEI	CTNAG	1 cut(s)	1373
BstDSI	CCRYGG	1 cut(s)	905
BstEII	GGTNACC	1 cut(s)	781
BstF5I	GGATG	3 cut(s)	28, 916, 1298
BstFNI	CGCG	1 cut(s)	1143
BstKTI	GATC	5 cut(s)	340, 583, 613, 987, 1152
BstMAI	GTCTC	2 cut(s)	525, 1369
BstMBI	GATC	5 cut(s)	337, 580, 610, 984, 1149
BstMWI	GCNNNNNNNGC	3 cut(s)	1028, 1037, 1260
BstNI	CCWGG	2 cut(s)	807, 824
BstPI	GGTNACC	1 cut(s)	781
BstSCI	CCNGG	2 cut(s)	805, 822
BstSLI	GKGCMC	2 cut(s)	823, 1256
BstUI	CGCG	1 cut(s)	1143
BstV1I	GCAGC	5 cut(s)	841, 931, 1024, 1034, 1212
BstV2I	GAAGAC	1 cut(s)	446
Bsu15I	ATCGAT	1 cut(s)	613
BsuRI	GGCC	3 cut(s)	369, 510, 1126
BsuTUI	ATCGAT	1 cut(s)	613
BtgI	CCRYGG	1 cut(s)	905
BtgZI	GCGATG	1 cut(s)	1158
BtsCI	GGATG	3 cut(s)	28, 916, 1298
BtsIMutI	CAGTG	1 cut(s)	823
BveI	ACCTGC	1 cut(s)	1316
Cac8I	GCNNGC	4 cut(s)	265, 367, 492, 859
CciI	TCATGA	2 cut(s)	229, 1156
Cfr13I	GGNCC	3 cut(s)	683, 902, 1112
ClaI	ATCGAT	1 cut(s)	613
Csp6I	GTAC	2 cut(s)	147, 1063
CspCI	CAANNNNNGTGG	2 cut(s)	1300, 1335
CviQI	GTAC	2 cut(s)	147, 1063
DdeI	CTNAG	1 cut(s)	1373
DpnI	GATC	5 cut(s)	339, 582, 612, 986, 1151
DpnII	GATC	5 cut(s)	337, 580, 610, 984, 1149
DrdI	GACNNNNNNGTC	1 cut(s)	1322
DseDI	GACNNNNNNGTC	1 cut(s)	1322
EaeI	YGGCCR	1 cut(s)	508
Eco130I	CCWWGG	1 cut(s)	905
Eco47I	GGWCC	3 cut(s)	683, 902, 1112
Eco91I	GGTNACC	1 cut(s)	781
EcoO65I	GGTNACC	1 cut(s)	781
EcoRII	CCWGG	2 cut(s)	805, 822
EcoT14I	CCWWGG	1 cut(s)	905
EcoT22I	ATGCAT	1 cut(s)	571
ErhI	CCWWGG	1 cut(s)	905
FalI	AAGNNNNNCTT	2 cut(s)	354, 386
FaqI	GGGAC	1 cut(s)	911
FbaI	TGATCA	2 cut(s)	580, 1149
Fnu4HI	GCNGC	7 cut(s)	511, 714, 855, 920, 1023, 1038, 1226
FokI	GGATG	3 cut(s)	35, 923, 1305
Fsp4HI	GCNGC	7 cut(s)	511, 714, 855, 920, 1023, 1038, 1226
FspBI	CTAG	1 cut(s)	858
GluI	GCNGC	7 cut(s)	511, 714, 855, 920, 1023, 1038, 1226
GsuI	CTGGAG	1 cut(s)	265
HaeIII	GGCC	3 cut(s)	369, 510, 1126
HincII	GTYRAC	1 cut(s)	973
HindII	GTYRAC	1 cut(s)	973
HphI	GGTGA	2 cut(s)	575, 970
Hpy166II	GTNNAC	3 cut(s)	28, 973, 1115
Hpy188I	TCNGA	4 cut(s)	10, 994, 1105, 1292
Hpy188III	TCNNGA	7 cut(s)	70, 200, 230, 584, 605, 1157, 1352
Hpy8I	GTNNAC	3 cut(s)	28, 973, 1115
Hpy99I	CGWCG	1 cut(s)	187
HpyAV	CCTTC	3 cut(s)	264, 1009, 1100
HpyCH4III	ACNGT	2 cut(s)	838, 1319
HpyCH4IV	ACGT	4 cut(s)	185, 215, 310, 1117
HpyCH4V	TGCA	7 cut(s)	263, 569, 914, 919, 1031, 1166, 1311
HpyF10VI	GCNNNNNNNGC	3 cut(s)	1028, 1037, 1260
HpyF3I	CTNAG	1 cut(s)	1373
HpySE526I	ACGT	4 cut(s)	185, 215, 310, 1117
KpnI	GGTACC	1 cut(s)	150
Ksp22I	TGATCA	2 cut(s)	580, 1149
Kzo9I	GATC	5 cut(s)	337, 580, 610, 984, 1149
LmnI	GCTCC	1 cut(s)	1222
Lsp1109I	GCAGC	5 cut(s)	841, 931, 1024, 1034, 1212
LweI	GCATC	5 cut(s)	556, 578, 605, 700, 901
MaeI	CTAG	1 cut(s)	858
MaeII	ACGT	4 cut(s)	185, 215, 310, 1117
MaeIII	GTNAC	2 cut(s)	100, 781
MalI	GATC	5 cut(s)	339, 582, 612, 986, 1151
MboI	GATC	5 cut(s)	337, 580, 610, 984, 1149
MboII	GAAGA	3 cut(s)	446, 545, 822
MfeI	CAATTG	1 cut(s)	717
MhlI	GDGCHC	2 cut(s)	823, 1256
MlyI	GAGTC	4 cut(s)	272, 1253, 1332, 1371
MmeI	TCCRAC	2 cut(s)	710, 868
MnlI	CCTC	7 cut(s)	13, 59, 167, 625, 700, 951, 1146
Mph1103I	ATGCAT	1 cut(s)	571
MseI	TTAA	5 cut(s)	53, 86, 386, 671, 1170
MslI	CAYNNNNRTG	2 cut(s)	272, 1161
MspCI	CTTAAG	1 cut(s)	670
MspR9I	CCNGG	2 cut(s)	807, 824
MunI	CAATTG	1 cut(s)	717
Mva1269I	GAATGC	1 cut(s)	1194
MvaI	CCWGG	2 cut(s)	807, 824
MvnI	CGCG	1 cut(s)	1143
MwoI	GCNNNNNNNGC	3 cut(s)	1028, 1037, 1260
NcoI	CCATGG	1 cut(s)	905
NdeII	GATC	5 cut(s)	337, 580, 610, 984, 1149
NheI	GCTAGC	1 cut(s)	857
NlaIV	GGNNCC	1 cut(s)	148
NmeAIII	GCCGAG	1 cut(s)	1231
NsiI	ATGCAT	1 cut(s)	571
PagI	TCATGA	2 cut(s)	229, 1156
PctI	GAATGC	1 cut(s)	1194
PfeI	GAWTC	8 cut(s)	66, 179, 194, 224, 374, 478, 813, 1100
PkrI	GCNGC	7 cut(s)	512, 715, 856, 921, 1024, 1039, 1227
PleI	GAGTC	4 cut(s)	272, 1252, 1331, 1371
PpsI	GAGTC	4 cut(s)	272, 1252, 1331, 1371
Ppu21I	YACGTR	2 cut(s)	311, 1118
Psp6I	CCWGG	2 cut(s)	805, 822
PspEI	GGTNACC	1 cut(s)	781
PspGI	CCWGG	2 cut(s)	805, 822
PspN4I	GGNNCC	1 cut(s)	148
PspPI	GGNCC	3 cut(s)	683, 902, 1112
RsaI	GTAC	2 cut(s)	148, 1064
RsaNI	GTAC	2 cut(s)	147, 1063
RseI	CAYNNNNRTG	2 cut(s)	272, 1161
SaqAI	TTAA	5 cut(s)	53, 86, 386, 671, 1170
SatI	GCNGC	7 cut(s)	511, 714, 855, 920, 1023, 1038, 1226
Sau3AI	GATC	5 cut(s)	337, 580, 610, 984, 1149
Sau96I	GGNCC	3 cut(s)	683, 902, 1112
SchI	GAGTC	4 cut(s)	272, 1253, 1332, 1371
ScrFI	CCNGG	2 cut(s)	807, 824
SduI	GDGCHC	2 cut(s)	823, 1256
SfaNI	GCATC	5 cut(s)	556, 578, 605, 700, 901
SinI	GGWCC	3 cut(s)	683, 902, 1112
SmiMI	CAYNNNNRTG	2 cut(s)	272, 1161
SmlI	CTYRAG	1 cut(s)	670
SmoI	CTYRAG	1 cut(s)	670
SsiI	CCGC	3 cut(s)	511, 595, 713
SspI	AATATT	2 cut(s)	97, 434
SspMI	CTAG	1 cut(s)	858
StyD4I	CCNGG	2 cut(s)	805, 822
StyI	CCWWGG	1 cut(s)	905
TaaI	ACNGT	2 cut(s)	838, 1319
TaiI	ACGT	4 cut(s)	188, 218, 313, 1120
TaqI	TCGA	6 cut(s)	182, 272, 528, 613, 630, 1351
TatI	WGTACW	1 cut(s)	1062
TauI	GCSGC	2 cut(s)	513, 716
TfiI	GAWTC	8 cut(s)	66, 179, 194, 224, 374, 478, 813, 1100
Tru1I	TTAA	5 cut(s)	53, 86, 386, 671, 1170
Tru9I	TTAA	5 cut(s)	53, 86, 386, 671, 1170
TscAI	CASTG	1 cut(s)	823
TseI	GCWGC	5 cut(s)	854, 919, 1022, 1037, 1225
TspDTI	ATGAA	8 cut(s)	111, 342, 426, 432, 446, 546, 1113, 1323
TspGWI	ACGGA	2 cut(s)	789, 915
TspRI	CASTG	1 cut(s)	823
Vha464I	CTTAAG	1 cut(s)	670
VpaK11BI	GGWCC	3 cut(s)	683, 902, 1112
XapI	RAATTY	3 cut(s)	382, 841, 1050
XspI	CTAG	1 cut(s)	858
Zsp2I	ATGCAT	1 cut(s)	571

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