Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0012321

Physical Location & Seq

Genomic Coordinates Forward (+)

83229761 .. 83230597

Gene Structure 837 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG540300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 837 bp

ATGGCCACGCGCCTCGCCCTCCGCCTCAAATCCCACCTCCTCCGCCGCACAACCGCCGCCCCCTCTTCCCTCATCCACCTCCGCCCCTACACCAAATCTCCGCCGTCGATCTTCTCCTCACTCTCCCAACTCCCCCATCCACAGCCACAGCCGACGAATCTCCGATCCTTCACTCTCCGCTTCCTCTCCACCTCCTCCCGCCGCGGCCCGACCCGGCCCAAGCCCGTCGACATCGGGGCCCGGGCCCGCCAGCTCCAGACCCGCCGCCTCTGGACCTACGCCCTCACCTTCAGCTGCATCGCCGGCTTCATCGTCATCGTCCTCAACAGCTTCCAGGACCAACTCGTCTTCTACGTCACCCCCACCGACGCCCTCGACAAGTACGCCACAAACCCTAGCAAGAGCAAGTTCCGCCTCGGCGGCCTCGTCCTCGAAGGCAGCGTCGTCCAGCCGGCGTCCTCGCCGGAGATGGAGTTCGTCATCACCGATCTCATGACCGATATCCTGGTCCGCTACAAGGGCTCCTTGCCGGATTTGTTCCGGGAGGGCCACTCCGTCGTGGTGGAGGGGTTCGTCAAGCCTTTTACCGACGAAGTCCGCAAGGAAGTGTCGACGAAAAGCGTCTCCGGGAAGGCCAGGACCGGAGAGTGTTATTTTTCGGCCACTGAGGTTTTGGCAAAGCACGATGAGAAGTATATGCCGGGGGAAGTTGCGGCGGCGCTCGAGAAGAACAAGAAGAAGCTTGCGGAGGAGGCGAAGGCCGGCGGTGAAGGTGGAGCTCATTTGGAGAACAATGCCGGTGGTGAAGCTGATGGAGCACTAGTTAAGAGCTCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016043 GO:0017003 GO:0017004 GO:0017006 GO:0018063 GO:0019538 GO:0019866 GO:0020037 GO:0022607 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0034622 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0046906 GO:0048037 GO:0065003 GO:0071704 GO:0071840 GO:0097159 GO:1901363 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

CcmE

Protein Analysis

278

Amino Acids

30.47

Weight (kDa)

9.67

Isoelectric Point (pI)

50.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CcmE	PF03100	116 - 234	5.3e-27	CcmE domain

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: OG0012321)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51790
fragaria_vesca	FvH4_3g43060
malus_domestica	MD03G1024200.v1.1 MD11G1029300.v1.1
prunus_persica	Prupe.6G023600_v2.0.a1 Prupe.6G023600_v2.0.a1
pyrus_communis	pycom11g02280
rosa_chinensis	RchiOBHm_Chr5g0077121
rosa_laevigata	RLG00000036667
rosa_multiflora	Rmu_sc0009061.1_g000004 Rmu_sc0009061.1_g000005 Rmu_sc0010146.1_g000001 Rmu_sc0021865.1_g000001 Rmu_sc0021865.1_g000002
rosa_roxburghii	Rroxscaffold_1G00004970
rosa_rugosa	Rorug05G0452000
rosa_samantha	Rh5CG552300 Rh5DG540300
rosa_wichuraiana	Rw5G047040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	344
AccI	GTMKAC	2 cut(s)	228, 611
AccII	CGCG	2 cut(s)	10, 204
AclWI	GGATC	1 cut(s)	159
AcoI	YGGCCR	2 cut(s)	3, 660
AcuI	CTGAAG	1 cut(s)	274
AcyI	GRCGYC	2 cut(s)	369, 455
AfaI	GTAC	1 cut(s)	383
AfiI	CCNNNNNNNGG	1 cut(s)	517
AhlI	ACTAGT	1 cut(s)	820
AjnI	CCWGG	3 cut(s)	333, 504, 635
AloI	GAACNNNNNNTCC	2 cut(s)	458, 490
AluBI	AGCT	7 cut(s)	253, 294, 330, 742, 779, 809, 831
AluI	AGCT	7 cut(s)	253, 294, 330, 742, 779, 809, 831
Alw21I	GWGCWC	3 cut(s)	781, 820, 833
Alw26I	GTCTC	1 cut(s)	628
AlwI	GGATC	1 cut(s)	159
Ama87I	CYCGRG	2 cut(s)	240, 722
ApaI	GGGCCC	2 cut(s)	241, 247
ApeKI	GCWGC	2 cut(s)	294, 438
ArsI	GACNNNNNNTTYG	2 cut(s)	426, 458
AspLEI	GCGC	2 cut(s)	12, 721
AsuC2I	CCSGG	6 cut(s)	214, 241, 242, 542, 628, 702
AsuHPI	GGTGA	5 cut(s)	277, 349, 475, 779, 815
AvaI	CYCGRG	2 cut(s)	240, 722
AvaII	GGWCC	4 cut(s)	273, 337, 508, 639
BaeGI	GKGCMC	2 cut(s)	241, 247
BalI	TGGCCA	1 cut(s)	5
BanII	GRGCYC	5 cut(s)	241, 247, 524, 781, 833
BbsI	GAAGAC	1 cut(s)	340
Bbv12I	GWGCWC	3 cut(s)	781, 820, 833
BbvI	GCAGC	2 cut(s)	281, 450
BccI	CCATC	3 cut(s)	144, 463, 806
BceAI	ACGGC	1 cut(s)	88
BciT130I	CCWGG	3 cut(s)	335, 506, 637
BcnI	CCSGG	6 cut(s)	214, 241, 242, 542, 628, 702
BcoDI	GTCTC	1 cut(s)	628
BcuI	ACTAGT	1 cut(s)	820
BfaI	CTAG	2 cut(s)	396, 821
BfoI	RGCGCY	1 cut(s)	722
BglI	GCCNNNNNGGC	1 cut(s)	420
Bme1390I	CCNGG	9 cut(s)	214, 241, 242, 335, 506, 542, 628, 637, 702
Bme18I	GGWCC	4 cut(s)	273, 337, 508, 639
BmeT110I	CYCGRG	2 cut(s)	240, 722
BmiI	GGNNCC	4 cut(s)	238, 239, 245, 523
BmrFI	CCNGG	9 cut(s)	214, 241, 242, 335, 506, 542, 628, 637, 702
BmsI	GCATC	1 cut(s)	306
BpiI	GAAGAC	1 cut(s)	340
BplI	GAGNNNNNCTC	2 cut(s)	536, 568
BpmI	CTGGAG	1 cut(s)	239
BpuMI	CCSGG	6 cut(s)	214, 241, 242, 542, 628, 702
BsaHI	GRCGYC	2 cut(s)	369, 455
BsaJI	CCNNGG	4 cut(s)	202, 240, 415, 701
BsaWI	WCCGGW	1 cut(s)	641
BsaXI	ACNNNNNCTCC	8 cut(s)	82, 112, 458, 488, 506, 536, 807, 837
Bsc4I	CCNNNNNNNGG	1 cut(s)	517
Bse118I	RCCGGY	4 cut(s)	302, 451, 761, 797
BseBI	CCWGG	3 cut(s)	335, 506, 637
BseDI	CCNNGG	4 cut(s)	202, 240, 415, 701
BseGI	GGATG	2 cut(s)	72, 136
BseLI	CCNNNNNNNGG	1 cut(s)	517
BseMII	CTCAG	1 cut(s)	657
BseRI	GAGGAG	4 cut(s)	29, 106, 184, 764
BseSI	GKGCMC	2 cut(s)	241, 247
BseXI	GCAGC	2 cut(s)	281, 450
Bsh1236I	CGCG	2 cut(s)	10, 204
BsiHKAI	GWGCWC	3 cut(s)	781, 820, 833
BsiHKCI	CYCGRG	2 cut(s)	240, 722
BslI	CCNNNNNNNGG	1 cut(s)	517
BsmAI	GTCTC	1 cut(s)	628
BsmBI	CGTCTC	1 cut(s)	628
BsoBI	CYCGRG	2 cut(s)	240, 722
Bsp120I	GGGCCC	2 cut(s)	237, 243
Bsp1286I	GDGCHC	6 cut(s)	241, 247, 524, 781, 820, 833
Bsp143I	GATC	3 cut(s)	108, 164, 487
BspCNI	CTCAG	1 cut(s)	658
BspFNI	CGCG	2 cut(s)	10, 204
BspHI	TCATGA	1 cut(s)	492
BspLI	GGNNCC	4 cut(s)	238, 239, 245, 523
BspPI	GGATC	1 cut(s)	159
BsrFI	RCCGGY	4 cut(s)	302, 451, 761, 797
BssAI	RCCGGY	4 cut(s)	302, 451, 761, 797
BssECI	CCNNGG	4 cut(s)	202, 240, 415, 701
BssMI	GATC	3 cut(s)	108, 164, 487
BssNI	GRCGYC	2 cut(s)	369, 455
Bst2UI	CCWGG	3 cut(s)	335, 506, 637
Bst6I	CTCTTC	1 cut(s)	70
BstACI	GRCGYC	2 cut(s)	369, 455
BstC8I	GCNNGC	6 cut(s)	247, 251, 304, 453, 744, 763
BstDEI	CTNAG	2 cut(s)	666, 834
BstDSI	CCRYGG	1 cut(s)	202
BstF5I	GGATG	2 cut(s)	72, 136
BstFNI	CGCG	2 cut(s)	10, 204
BstH2I	RGCGCY	1 cut(s)	722
BstHHI	GCGC	2 cut(s)	12, 721
BstKTI	GATC	3 cut(s)	111, 167, 490
BstMAI	GTCTC	1 cut(s)	628
BstMBI	GATC	3 cut(s)	108, 164, 487
BstMWI	GCNNNNNNNGC	6 cut(s)	303, 411, 420, 519, 752, 815
BstNI	CCWGG	3 cut(s)	335, 506, 637
BstSCI	CCNGG	9 cut(s)	212, 239, 240, 333, 504, 540, 626, 635, 700
BstSLI	GKGCMC	2 cut(s)	241, 247
BstUI	CGCG	2 cut(s)	10, 204
BstV1I	GCAGC	2 cut(s)	281, 450
BstV2I	GAAGAC	1 cut(s)	340
BtgI	CCRYGG	1 cut(s)	202
BtgZI	GCGATG	1 cut(s)	283
BtsCI	GGATG	2 cut(s)	72, 136
BtsIMutI	CAGTG	1 cut(s)	663
Cac8I	GCNNGC	6 cut(s)	247, 251, 304, 453, 744, 763
CciI	TCATGA	1 cut(s)	492
CfoI	GCGC	2 cut(s)	12, 721
Cfr10I	RCCGGY	4 cut(s)	302, 451, 761, 797
Cfr42I	CCGCGG	1 cut(s)	205
Cfr9I	CCCGGG	1 cut(s)	240
CseI	GACGC	4 cut(s)	377, 430, 444, 610
Csp6I	GTAC	1 cut(s)	382
CspCI	CAANNNNNGTGG	2 cut(s)	781, 816
CviAII	CATG	1 cut(s)	493
CviQI	GTAC	1 cut(s)	382
DdeI	CTNAG	2 cut(s)	666, 834
DpnI	GATC	3 cut(s)	110, 166, 489
DpnII	GATC	3 cut(s)	108, 164, 487
DrdI	GACNNNNNNGTC	1 cut(s)	344
DseDI	GACNNNNNNGTC	1 cut(s)	344
EaeI	YGGCCR	2 cut(s)	3, 660
Eam1104I	CTCTTC	1 cut(s)	70
EarI	CTCTTC	1 cut(s)	70
EciI	GGCGGA	5 cut(s)	11, 32, 71, 90, 401
Ecl136II	GAGCTC	2 cut(s)	779, 831
Eco24I	GRGCYC	5 cut(s)	241, 247, 524, 781, 833
Eco32I	GATATC	1 cut(s)	502
Eco47I	GGWCC	4 cut(s)	273, 337, 508, 639
Eco53kI	GAGCTC	2 cut(s)	779, 831
Eco57I	CTGAAG	1 cut(s)	274
Eco88I	CYCGRG	2 cut(s)	240, 722
EcoICRI	GAGCTC	2 cut(s)	779, 831
EcoO109I	RGGNCCY	1 cut(s)	237
EcoRII	CCWGG	3 cut(s)	333, 504, 635
EcoRV	GATATC	1 cut(s)	502
EcoT38I	GRGCYC	5 cut(s)	241, 247, 524, 781, 833
Esp3I	CGTCTC	1 cut(s)	628
FaeI	CATG	1 cut(s)	496
FaiI	YATR	3 cut(s)	494, 696, 698
FalI	AAGNNNNNCTT	2 cut(s)	509, 541
FatI	CATG	1 cut(s)	492
FauI	CCCGC	3 cut(s)	206, 254, 269
FblI	GTMKAC	2 cut(s)	228, 611
FokI	GGATG	2 cut(s)	59, 123
FriOI	GRGCYC	5 cut(s)	241, 247, 524, 781, 833
FspBI	CTAG	2 cut(s)	396, 821
GlaI	GCGC	2 cut(s)	11, 720
GsuI	CTGGAG	1 cut(s)	239
HaeII	RGCGCY	1 cut(s)	722
HgaI	GACGC	4 cut(s)	377, 430, 444, 610
HhaI	GCGC	2 cut(s)	12, 721
Hin1I	GRCGYC	2 cut(s)	369, 455
Hin1II	CATG	1 cut(s)	496
Hin6I	GCGC	2 cut(s)	10, 719
HinP1I	GCGC	2 cut(s)	10, 719
HincII	GTYRAC	2 cut(s)	229, 612
HindII	GTYRAC	2 cut(s)	229, 612
HindIII	AAGCTT	1 cut(s)	740
HinfI	GANTC	1 cut(s)	157
HphI	GGTGA	5 cut(s)	277, 349, 475, 779, 815
Hpy166II	GTNNAC	2 cut(s)	229, 612
Hpy188I	TCNGA	1 cut(s)	164
Hpy188III	TCNNGA	4 cut(s)	256, 271, 493, 724
Hpy8I	GTNNAC	2 cut(s)	229, 612
Hpy99I	CGWCG	8 cut(s)	109, 157, 230, 371, 446, 560, 593, 616
HpyAV	CCTTC	6 cut(s)	178, 298, 428, 625, 751, 764
HpyCH4IV	ACGT	1 cut(s)	354
HpyCH4V	TGCA	1 cut(s)	297
HpyF10VI	GCNNNNNNNGC	6 cut(s)	303, 411, 420, 519, 752, 815
HpyF3I	CTNAG	2 cut(s)	666, 834
HpySE526I	ACGT	1 cut(s)	354
Hsp92I	GRCGYC	2 cut(s)	369, 455
Hsp92II	CATG	1 cut(s)	496
HspAI	GCGC	2 cut(s)	10, 719
KroI	GCCGGC	3 cut(s)	302, 451, 761
KroNI	GCCGGC	3 cut(s)	304, 453, 763
KspI	CCGCGG	1 cut(s)	205
Kzo9I	GATC	3 cut(s)	108, 164, 487
LmnI	GCTCC	4 cut(s)	258, 527, 776, 815
Lsp1109I	GCAGC	2 cut(s)	281, 450
LweI	GCATC	1 cut(s)	306
MaeI	CTAG	2 cut(s)	396, 821
MaeII	ACGT	1 cut(s)	354
MaeIII	GTNAC	1 cut(s)	355
MalI	GATC	3 cut(s)	110, 166, 489
MboI	GATC	3 cut(s)	108, 164, 487
MboII	GAAGA	5 cut(s)	57, 103, 340, 739, 748
MhlI	GDGCHC	6 cut(s)	241, 247, 524, 781, 820, 833
MlsI	TGGCCA	1 cut(s)	5
MluNI	TGGCCA	1 cut(s)	5
Mox20I	TGGCCA	1 cut(s)	5
MroNI	GCCGGC	3 cut(s)	302, 451, 761
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	1 cut(s)	825
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	2 cut(s)	204, 294
MspR9I	CCNGG	9 cut(s)	214, 241, 242, 335, 506, 542, 628, 637, 702
MvaI	CCWGG	3 cut(s)	335, 506, 637
MvnI	CGCG	2 cut(s)	10, 204
MwoI	GCNNNNNNNGC	6 cut(s)	303, 411, 420, 519, 752, 815
NaeI	GCCGGC	3 cut(s)	304, 453, 763
NciI	CCSGG	6 cut(s)	214, 241, 242, 542, 628, 702
NdeII	GATC	3 cut(s)	108, 164, 487
NgoMIV	GCCGGC	3 cut(s)	302, 451, 761
NlaIII	CATG	1 cut(s)	496
NlaIV	GGNNCC	4 cut(s)	238, 239, 245, 523
NmeAIII	GCCGAG	1 cut(s)	396
NmuCI	GTSAC	1 cut(s)	355
PaeR7I	CTCGAG	1 cut(s)	722
PagI	TCATGA	1 cut(s)	492
PcsI	WCGNNNNNNNCGW	4 cut(s)	351, 423, 438, 483
PdiI	GCCGGC	3 cut(s)	304, 453, 763
PfeI	GAWTC	1 cut(s)	157
PflFI	GACNNNGTC	1 cut(s)	593
PfoI	TCCNGGA	3 cut(s)	333, 540, 626
Psp124BI	GAGCTC	2 cut(s)	781, 833
Psp6I	CCWGG	3 cut(s)	333, 504, 635
PspGI	CCWGG	3 cut(s)	333, 504, 635
PspN4I	GGNNCC	4 cut(s)	238, 239, 245, 523
PspOMI	GGGCCC	2 cut(s)	237, 243
PsyI	GACNNNGTC	1 cut(s)	593
PvuII	CAGCTG	1 cut(s)	294
RsaI	GTAC	1 cut(s)	383
RsaNI	GTAC	1 cut(s)	382
SacI	GAGCTC	2 cut(s)	781, 833
SacII	CCGCGG	1 cut(s)	205
SalI	GTCGAC	2 cut(s)	227, 610
SaqAI	TTAA	1 cut(s)	825
Sau3AI	GATC	3 cut(s)	108, 164, 487
ScrFI	CCNGG	9 cut(s)	214, 241, 242, 335, 506, 542, 628, 637, 702
SduI	GDGCHC	6 cut(s)	241, 247, 524, 781, 820, 833
SfaNI	GCATC	1 cut(s)	306
Sfr274I	CTCGAG	1 cut(s)	722
Sfr303I	CCGCGG	1 cut(s)	205
SgrBI	CCGCGG	1 cut(s)	205
SinI	GGWCC	4 cut(s)	273, 337, 508, 639
SlaI	CTCGAG	1 cut(s)	722
SmaI	CCCGGG	1 cut(s)	242
SmlI	CTYRAG	1 cut(s)	722
SmoI	CTYRAG	1 cut(s)	722
SpeI	ACTAGT	1 cut(s)	820
SrfI	GCCCGGGC	1 cut(s)	242
SspMI	CTAG	2 cut(s)	396, 821
SstI	GAGCTC	2 cut(s)	781, 833
StyD4I	CCNGG	9 cut(s)	212, 239, 240, 333, 504, 540, 626, 635, 700
TaiI	ACGT	1 cut(s)	357
TaqI	TCGA	6 cut(s)	107, 228, 375, 432, 611, 723
TaqII	GACCGA	1 cut(s)	512
TauI	GCSGC	8 cut(s)	48, 59, 204, 207, 267, 423, 716, 719
TfiI	GAWTC	1 cut(s)	157
Tru1I	TTAA	1 cut(s)	825
Tru9I	TTAA	1 cut(s)	825
TscAI	CASTG	1 cut(s)	670
TseFI	GTSAC	1 cut(s)	355
TseI	GCWGC	2 cut(s)	294, 438
Tsp45I	GTSAC	1 cut(s)	355
TspDTI	ATGAA	1 cut(s)	298
TspGWI	ACGGA	1 cut(s)	544
TspMI	CCCGGG	1 cut(s)	240
TspRI	CASTG	1 cut(s)	670
Tth111I	GACNNNGTC	1 cut(s)	593
VpaK11BI	GGWCC	4 cut(s)	273, 337, 508, 639
XcmI	CCANNNNNNNNNTGG	1 cut(s)	670
XhoI	CTCGAG	1 cut(s)	722
XmaI	CCCGGG	1 cut(s)	240
XmiI	GTMKAC	2 cut(s)	228, 611
XspI	CTAG	2 cut(s)	396, 821

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