Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0001848

Physical Location & Seq

Genomic Coordinates Forward (+)

18128768 .. 18155979

Gene Structure 27212 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G008300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGAGAGGAAGGGAACAAATGGAACCGAAAATTGTGAAATGGAATTTGCTGGAACTTTATGCTAGGATGAAAGTGGTCTCTATTCTTGAGATAGAGGTAAAGGAAAGAGATGAGGATCAGAGTACTAATGTTGTGCCTAGTGGTGAGAAGCATTTAGTTGAAATTGGGACTACAAGCGGTACAAAATCAAGAGAACGAAAAAATGCGACTGATTTTGATCCCAACAAGATGTTCCAGCTGTTACCGACCCAATTCTACTTGGAAGAAAGCCAAGAGGGACCTTCAAGCAATGAGAATGATATACCTGAATTGGAGAAAATGGTACATGCAGAAAAGCTCAAGGAATATTTGTCCAAAGCTAGCAAGTTTGGGTATGAACCTGTTTTGAGGCTGCTGCAAGCTATCTTCATCTGCTATTTACTCATCAATCTGTCCAACCTTGTTTTCCCAATAATTGATGTGGCAATTGACATTGTTGAAAAAAACAATGGACAATACCATGTTCTTGTCATTATAGCAGACGGACAGGTTACCATAAGCCCTGATACTCCACCTGGAAGATTCAGTGCCCAAGAACAAGCGACTGTAAATTCCATAGTTGCTGCTAGCCTGCAAAGATGCATTCTTATGCTTAAAACGGTTGCTACCTTGAGGAGAGATGACTTTGGTTTCAATGACATTCTTTGGGTATACAGTGGCCGACATGGTGTTCACTATTGGGTTTGTGATGAGAAAGCTGGAAGCCCGAACCTGGACGGCGTCTCCTCCATGGTCACTGCTTTCGAGATCCTCCGCACCGCCCACAAGAACGCTGCCCCAAAACCTCCCAACTGGTACAAGATCCTCCAGGCTTCCTTTGAAGGCCTAAAAGTTGTGTTTATGCATCTGAACCAGCAATCACAAAAAATAGTCAGCGTACTCAAAAGTAATGAAGTAGCAAACAATCTGGATGAACATCGTGACAAACGAGTGAGAAATAATCAGAAAGGTCTTACTGTCATGCAAGGCCAGAGTTTGTTTGCAGATGGAAATGTTAATACATGCAATACAAATGCAGCAGGTCAATCTTCGTATTCATTTGGTCAGGCATCGTATCAAAGAAACAGAGAAGGTTAG

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

371

Amino Acids

41.83

Weight (kDa)

6.48

Isoelectric Point (pI)

40.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Copine	PF07002	123 - 203	1.3e-09	Copine
DNA_primase_S	PF01896	192 - 291	1.7e-08	DNA primase small subunit

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: OG0001848)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0344671 RchiOBHm_Chr2g0103891 RchiOBHm_Chr2g0125481 RchiOBHm_Chr2g0127991 RchiOBHm_Chr4g0404361 RchiOBHm_Chr6g0293921 RchiOBHm_Chr7g0183991 RchiOBHm_Chr7g0200701 RchiOBHm_Chr7g0203451 RchiOBHm_Chr7g0233851
rosa_laevigata	RLG00000009445
rosa_multiflora	Rmu_sc0001762.1_g000048 Rmu_ssc0000198.1_g000001
rosa_roxburghii	Rroxscaffold_176G00431470 Rroxscaffold_1G00006800 Rroxscaffold_1G00038540 Rroxscaffold_1G00072610 Rroxscaffold_2G00078350 Rroxscaffold_2G00079900 Rroxscaffold_2G00125220 Rroxscaffold_3G00246630 Rroxscaffold_4G00306170 Rroxscaffold_4G00314800 Rroxscaffold_4G00317460 Rroxscaffold_4G00319930 Rroxscaffold_5G00343110 Rroxscaffold_6G00395760 Rroxscaffold_6G00421380 Rroxscaffold_7G00160650
rosa_rugosa	Rorug01G0217800 Rorug03G0274300 Rorug04G0088400 Rorug05G0172900 Rorug07G0221500
rosa_samantha	Rh1BG311700 Rh1DG110800 Rh2AG655300 Rh2BG324100 Rh2BG414100 Rh2DG254900 Rh3DG077200 Rh4BG304400 Rh5DG244400 Rh7BG056200
rosa_wichuraiana	Rw1G008450 Rw2G032850 Rw4G008300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	1049
AccI	GTMKAC	1 cut(s)	690
AciI	CCGC	3 cut(s)	177, 793, 798
AclWI	GGATC	4 cut(s)	123, 212, 781, 835
AcoI	YGGCCR	1 cut(s)	697
AcsI	RAATTY	2 cut(s)	43, 589
AcyI	GRCGYC	1 cut(s)	759
AfaI	GTAC	5 cut(s)	124, 181, 324, 836, 918
AfiI	CCNNNNNNNGG	1 cut(s)	751
AgsI	TTSAA	5 cut(s)	161, 285, 479, 673, 860
AjnI	CCWGG	3 cut(s)	553, 750, 846
AjuI	GAANNNNNNNTTGG	4 cut(s)	215, 247, 428, 460
AluBI	AGCT	5 cut(s)	238, 337, 359, 401, 737
AluI	AGCT	5 cut(s)	238, 337, 359, 401, 737
Alw26I	GTCTC	2 cut(s)	82, 766
AlwI	GGATC	4 cut(s)	123, 212, 781, 835
AoxI	GGCC	3 cut(s)	697, 862, 1006
ApeKI	GCWGC	5 cut(s)	391, 394, 602, 812, 1055
ApoI	RAATTY	2 cut(s)	43, 589
AspS9I	GGNCC	1 cut(s)	278
AsuHPI	GGTGA	1 cut(s)	155
AsuNHI	GCTAGC	2 cut(s)	359, 605
AvaII	GGWCC	1 cut(s)	278
BaeGI	GKGCMC	1 cut(s)	571
BbvI	GCAGC	5 cut(s)	378, 381, 589, 799, 1067
BccI	CCATC	1 cut(s)	1019
BceAI	ACGGC	1 cut(s)	772
BciT130I	CCWGG	3 cut(s)	555, 752, 848
BcoDI	GTCTC	2 cut(s)	82, 766
BfaI	CTAG	4 cut(s)	63, 138, 360, 606
BfuAI	ACCTGC	1 cut(s)	1049
BisI	GCNGC	5 cut(s)	392, 395, 603, 813, 1056
BlsI	GCNGC	5 cut(s)	393, 396, 604, 814, 1057
BmcAI	AGTACT	1 cut(s)	124
Bme1390I	CCNGG	3 cut(s)	555, 752, 848
Bme18I	GGWCC	1 cut(s)	278
BmgT120I	GGNCC	1 cut(s)	278
BmiI	GGNNCC	2 cut(s)	24, 279
BmrFI	CCNGG	3 cut(s)	555, 752, 848
BmsI	GCATC	3 cut(s)	608, 892, 1097
BmtI	GCTAGC	2 cut(s)	363, 609
BpmI	CTGGAG	1 cut(s)	830
BpuEI	CTTGAG	3 cut(s)	107, 323, 670
BsaBI	GATNNNNATC	3 cut(s)	114, 216, 954
BsaHI	GRCGYC	1 cut(s)	759
BsaI	GGTCTC	1 cut(s)	82
BsaJI	CCNNGG	1 cut(s)	768
BsaXI	ACNNNNNCTCC	2 cut(s)	746, 776
Bsc4I	CCNNNNNNNGG	1 cut(s)	751
Bse1I	ACTGG	1 cut(s)	836
Bse3DI	GCAATG	1 cut(s)	295
Bse8I	GATNNNNATC	3 cut(s)	114, 216, 954
BseBI	CCWGG	3 cut(s)	555, 752, 848
BseDI	CCNNGG	1 cut(s)	768
BseGI	GGATG	2 cut(s)	72, 955
BseJI	GATNNNNATC	3 cut(s)	114, 216, 954
BseLI	CCNNNNNNNGG	1 cut(s)	751
BseMI	GCAATG	1 cut(s)	295
BseNI	ACTGG	1 cut(s)	836
BseRI	GAGGAG	2 cut(s)	667, 754
BseSI	GKGCMC	1 cut(s)	571
BseXI	GCAGC	5 cut(s)	378, 381, 589, 799, 1067
BshFI	GGCC	3 cut(s)	699, 864, 1008
BslFI	GGGAC	2 cut(s)	181, 291
BslI	CCNNNNNNNGG	1 cut(s)	751
BsmAI	GTCTC	2 cut(s)	82, 766
BsmBI	CGTCTC	1 cut(s)	766
BsmFI	GGGAC	2 cut(s)	181, 291
BsmI	GAATGC	1 cut(s)	621
BsnI	GGCC	3 cut(s)	699, 864, 1008
Bso31I	GGTCTC	1 cut(s)	82
Bsp1286I	GDGCHC	1 cut(s)	571
Bsp143I	GATC	4 cut(s)	115, 217, 786, 840
Bsp19I	CCATGG	1 cut(s)	768
BspACI	CCGC	3 cut(s)	177, 793, 798
BspANI	GGCC	3 cut(s)	699, 864, 1008
BspLI	GGNNCC	2 cut(s)	24, 279
BspMI	ACCTGC	1 cut(s)	1049
BspOI	GCTAGC	2 cut(s)	363, 609
BspPI	GGATC	4 cut(s)	123, 212, 781, 835
BspTNI	GGTCTC	1 cut(s)	82
BsrDI	GCAATG	1 cut(s)	295
BsrI	ACTGG	1 cut(s)	836
BssECI	CCNNGG	1 cut(s)	768
BssMI	GATC	4 cut(s)	115, 217, 786, 840
BssNAI	GTATAC	1 cut(s)	691
BssNI	GRCGYC	1 cut(s)	759
BssT1I	CCWWGG	1 cut(s)	768
Bst1107I	GTATAC	1 cut(s)	691
Bst2UI	CCWGG	3 cut(s)	555, 752, 848
Bst4CI	ACNGT	4 cut(s)	586, 640, 695, 997
BstACI	GRCGYC	1 cut(s)	759
BstC8I	GCNNGC	4 cut(s)	361, 399, 607, 611
BstDSI	CCRYGG	1 cut(s)	768
BstEII	GGTNACC	1 cut(s)	529
BstF5I	GGATG	2 cut(s)	72, 955
BstKTI	GATC	4 cut(s)	118, 220, 789, 843
BstMAI	GTCTC	2 cut(s)	82, 766
BstMBI	GATC	4 cut(s)	115, 217, 786, 840
BstNI	CCWGG	3 cut(s)	555, 752, 848
BstNSI	RCATGY	2 cut(s)	329, 1044
BstPI	GGTNACC	1 cut(s)	529
BstSCI	CCNGG	3 cut(s)	553, 750, 846
BstSLI	GKGCMC	1 cut(s)	571
BstV1I	GCAGC	5 cut(s)	378, 381, 589, 799, 1067
BstX2I	RGATCY	2 cut(s)	786, 840
BstYI	RGATCY	2 cut(s)	786, 840
BstZ17I	GTATAC	1 cut(s)	691
BsuRI	GGCC	3 cut(s)	699, 864, 1008
BtgI	CCRYGG	1 cut(s)	768
BtsCI	GGATG	2 cut(s)	72, 955
BtsI	GCAGTG	1 cut(s)	774
BtsIMutI	CAGTG	3 cut(s)	571, 700, 774
BveI	ACCTGC	1 cut(s)	1049
Cac8I	GCNNGC	4 cut(s)	361, 399, 607, 611
Cfr13I	GGNCC	1 cut(s)	278
CseI	GACGC	1 cut(s)	748
Csp6I	GTAC	5 cut(s)	123, 180, 323, 835, 917
CviAII	CATG	6 cut(s)	326, 500, 704, 769, 1000, 1041
CviQI	GTAC	5 cut(s)	123, 180, 323, 835, 917
DpnI	GATC	4 cut(s)	117, 219, 788, 842
DpnII	GATC	4 cut(s)	115, 217, 786, 840
EaeI	YGGCCR	1 cut(s)	697
Eco130I	CCWWGG	1 cut(s)	768
Eco147I	AGGCCT	1 cut(s)	864
Eco31I	GGTCTC	1 cut(s)	82
Eco47I	GGWCC	1 cut(s)	278
Eco91I	GGTNACC	1 cut(s)	529
EcoO109I	RGGNCCY	1 cut(s)	278
EcoO65I	GGTNACC	1 cut(s)	529
EcoRII	CCWGG	3 cut(s)	553, 750, 846
EcoT14I	CCWWGG	1 cut(s)	768
EcoT22I	ATGCAT	2 cut(s)	623, 885
ErhI	CCWWGG	1 cut(s)	768
Esp3I	CGTCTC	1 cut(s)	766
FaeI	CATG	6 cut(s)	329, 503, 707, 772, 1003, 1044
FaqI	GGGAC	2 cut(s)	181, 291
FatI	CATG	6 cut(s)	325, 499, 703, 768, 999, 1040
FblI	GTMKAC	1 cut(s)	690
Fnu4HI	GCNGC	5 cut(s)	392, 395, 603, 813, 1056
FokI	GGATG	2 cut(s)	79, 962
Fsp4HI	GCNGC	5 cut(s)	392, 395, 603, 813, 1056
FspBI	CTAG	4 cut(s)	63, 138, 360, 606
GluI	GCNGC	5 cut(s)	392, 395, 603, 813, 1056
GsuI	CTGGAG	1 cut(s)	830
HaeIII	GGCC	3 cut(s)	699, 864, 1008
HgaI	GACGC	1 cut(s)	748
Hin1I	GRCGYC	1 cut(s)	759
Hin1II	CATG	6 cut(s)	329, 503, 707, 772, 1003, 1044
HinfI	GANTC	1 cut(s)	561
HphI	GGTGA	1 cut(s)	155
Hpy166II	GTNNAC	2 cut(s)	691, 712
Hpy188I	TCNGA	3 cut(s)	120, 888, 984
Hpy188III	TCNNGA	5 cut(s)	86, 189, 784, 947, 959
Hpy8I	GTNNAC	2 cut(s)	691, 712
HpyAV	CCTTC	4 cut(s)	3, 291, 854, 1103
HpyCH4III	ACNGT	4 cut(s)	586, 640, 695, 997
HpyCH4V	TGCA	9 cut(s)	329, 397, 613, 621, 883, 1003, 1022, 1044, 1055
Hsp92I	GRCGYC	1 cut(s)	759
Hsp92II	CATG	6 cut(s)	329, 503, 707, 772, 1003, 1044
Kzo9I	GATC	4 cut(s)	115, 217, 786, 840
Lsp1109I	GCAGC	5 cut(s)	378, 381, 589, 799, 1067
LweI	GCATC	3 cut(s)	608, 892, 1097
MaeI	CTAG	4 cut(s)	63, 138, 360, 606
MaeIII	GTNAC	4 cut(s)	240, 529, 772, 959
MalI	GATC	4 cut(s)	117, 219, 788, 842
MboI	GATC	4 cut(s)	115, 217, 786, 840
MboII	GAAGA	4 cut(s)	275, 397, 570, 1059
MfeI	CAATTG	1 cut(s)	465
MflI	RGATCY	2 cut(s)	786, 840
MhlI	GDGCHC	1 cut(s)	571
MluCI	AATT	8 cut(s)	30, 43, 162, 251, 308, 453, 465, 589
MmeI	TCCRAC	1 cut(s)	459
MnlI	CCTC	9 cut(s)	88, 106, 268, 381, 645, 775, 800, 834, 854
Mph1103I	ATGCAT	2 cut(s)	623, 885
MseI	TTAA	2 cut(s)	633, 1035
MslI	CAYNNNNRTG	1 cut(s)	626
MspA1I	CMGCKG	1 cut(s)	238
MspR9I	CCNGG	3 cut(s)	555, 752, 848
MunI	CAATTG	1 cut(s)	465
Mva1269I	GAATGC	1 cut(s)	621
MvaI	CCWGG	3 cut(s)	555, 752, 848
NcoI	CCATGG	1 cut(s)	768
NdeII	GATC	4 cut(s)	115, 217, 786, 840
NheI	GCTAGC	2 cut(s)	359, 605
NlaIII	CATG	6 cut(s)	329, 503, 707, 772, 1003, 1044
NlaIV	GGNNCC	2 cut(s)	24, 279
NmuCI	GTSAC	2 cut(s)	772, 959
NsiI	ATGCAT	2 cut(s)	623, 885
NspI	RCATGY	2 cut(s)	329, 1044
PceI	AGGCCT	1 cut(s)	864
PcsI	WCGNNNNNNNCGW	1 cut(s)	964
PctI	GAATGC	1 cut(s)	621
PfeI	GAWTC	1 cut(s)	561
PflFI	GACNNNGTC	1 cut(s)	758
PkrI	GCNGC	5 cut(s)	393, 396, 604, 814, 1057
PpuMI	RGGWCCY	1 cut(s)	278
Psp5II	RGGWCCY	1 cut(s)	278
Psp6I	CCWGG	3 cut(s)	553, 750, 846
PspEI	GGTNACC	1 cut(s)	529
PspGI	CCWGG	3 cut(s)	553, 750, 846
PspN4I	GGNNCC	2 cut(s)	24, 279
PspPI	GGNCC	1 cut(s)	278
PspPPI	RGGWCCY	1 cut(s)	278
PsuI	RGATCY	2 cut(s)	786, 840
PsyI	GACNNNGTC	1 cut(s)	758
PvuII	CAGCTG	1 cut(s)	238
RsaI	GTAC	5 cut(s)	124, 181, 324, 836, 918
RsaNI	GTAC	5 cut(s)	123, 180, 323, 835, 917
RseI	CAYNNNNRTG	1 cut(s)	626
SaqAI	TTAA	2 cut(s)	633, 1035
SatI	GCNGC	5 cut(s)	392, 395, 603, 813, 1056
Sau3AI	GATC	4 cut(s)	115, 217, 786, 840
Sau96I	GGNCC	1 cut(s)	278
ScaI	AGTACT	1 cut(s)	124
ScrFI	CCNGG	3 cut(s)	555, 752, 848
SduI	GDGCHC	1 cut(s)	571
SfaNI	GCATC	3 cut(s)	608, 892, 1097
SinI	GGWCC	1 cut(s)	278
SmiMI	CAYNNNNRTG	1 cut(s)	626
SmlI	CTYRAG	3 cut(s)	86, 338, 649
SmoI	CTYRAG	3 cut(s)	86, 338, 649
Sse9I	AATT	8 cut(s)	30, 43, 162, 251, 308, 453, 465, 589
SseBI	AGGCCT	1 cut(s)	864
SsiI	CCGC	3 cut(s)	177, 793, 798
SspI	AATATT	1 cut(s)	347
SspMI	CTAG	4 cut(s)	63, 138, 360, 606
StuI	AGGCCT	1 cut(s)	864
StyD4I	CCNGG	3 cut(s)	553, 750, 846
StyI	CCWWGG	1 cut(s)	768
TaaI	ACNGT	4 cut(s)	586, 640, 695, 997
TaqI	TCGA	1 cut(s)	783
TasI	AATT	8 cut(s)	30, 43, 162, 251, 308, 453, 465, 589
TatI	WGTACW	1 cut(s)	122
TfiI	GAWTC	1 cut(s)	561
Tru1I	TTAA	2 cut(s)	633, 1035
Tru9I	TTAA	2 cut(s)	633, 1035
TscAI	CASTG	3 cut(s)	571, 700, 781
TseFI	GTSAC	2 cut(s)	772, 959
TseI	GCWGC	5 cut(s)	391, 394, 602, 812, 1055
Tsp45I	GTSAC	2 cut(s)	772, 959
TspDTI	ATGAA	6 cut(s)	83, 390, 397, 945, 966, 1065
TspGWI	ACGGA	1 cut(s)	537
TspRI	CASTG	3 cut(s)	571, 700, 781
Tth111I	GACNNNGTC	1 cut(s)	758
VpaK11BI	GGWCC	1 cut(s)	278
XapI	RAATTY	2 cut(s)	43, 589
XceI	RCATGY	2 cut(s)	329, 1044
XmiI	GTMKAC	1 cut(s)	690
XspI	CTAG	4 cut(s)	63, 138, 360, 606
ZrmI	AGTACT	1 cut(s)	124
Zsp2I	ATGCAT	2 cut(s)	623, 885

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