Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0001521

Physical Location & Seq

Genomic Coordinates Reverse (-)

10206095 .. 10210660

Gene Structure 4566 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG124200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGACTTTGATTCTGGGAGTGTACGGGTCTGAGACCTTAGAGCTTGGCCCTAATACTTCGACTCTTCTGCAACCTAACTCCATATTTGTGCAGTCTATAAAGGTGGAAGAGCTGAATGTATCAAACCCTGGGCCTGTGCTATATGGTTTCTATAGTGTTCCACCGCTTAATAGTGTGACGACTTGGTCAGAAACACACAGTGCCTCTGTTCCTGCTGATTCTCATAAGGAGTGGATATATTACCTAAATAAGGGGTCTCAAATAAGTATATCGTACAGCGTTTCCTCTCCCAGCACGTCTATTTTTCTTATAATTGCTGAAGGTAAAGAAGGCCTTGCTCAGTGGCTTGAAGAGCCAACATATCCTAATACTACATTGTCATGGAACCTCGTTCATGGAAGTGGCAAGATTCTGCAGGACATATCAACGTCTGATAATTACTATATTTCTGTGGGTAACCTGAACTATGAGGATGTGGAGGTGCAATTAAACTTCACGGTGAATGCTTTGTTGTATGATACAAGTGAAGCTTATTACAAGTGTACCTTCACAGATACGTCCTGCAGTTTGAAAATTTCGTTTCCTAGTGGAAATGTTGGTGTGTTAACATCTCCTGGTCCAGATCAGGGTATAGACAACCAGTATGTAAAACTGTCATATGGACCAAGATGGGCCACATATATTATTGGTATAGGAGCGATGACTATACTTATGTTATTGGCCTTCAACTTCTTGAACAAGTTCCGCTGTAACAATGAAGATGGAATAAGAGTACAGCATGAGGAGTTCAGACCAGAAAGAGCCCCGTTGCTTTCATACAAAGATGATGATCAATCAAGTTGGGGTTCATCTTATGATTCTGCCTCGAACGATGAGGGGGATCTTGAAGAACTTATGGCAGCAGGTTCTCTTGATGGAAAGTCACTTAGAGATGGTGAAAGTAACAATACTCGTCGGCTTTGTGCAATTTGTTTTGATGCTCCTAGGGACTGCTTTTTCCTCCCATGCGGGCACTGTGTGGCTTGTTTTGAATGCGCAACAAGGTATTCTTTTATGCTATTTCTATATGTCATATCTAATTTTGAAGCTCTATGTTTATCCCTGCAACAAGTCCACATACTTCTTAATACAGTCAATGAGGCCAGTTGCCCATTAGTACACGCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0031625 GO:0032446 GO:0032991 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044389 GO:0044424 GO:0044464 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF4792 DUF4793 zf-C3HC4_3

Protein Analysis

388

Amino Acids

42.97

Weight (kDa)

4.55

Isoelectric Point (pI)

41.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
APD1-4_N	PF16040	44 - 112	2.8e-25	E3 ubiquitin-protein ligase APD1-4, N-terminal
APD1-4_M	PF16041	137 - 240	1e-32	E3 ubiquitin-protein ligase APD1-4, middle domain
zf-C3HC4_3	PF13920	318 - 349	1.5e-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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001521)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01450
fragaria_vesca	FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_3g38600 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430 FvH4_6g11430
malus_domestica	MD03G1070000.v1.1 MD04G1153100.v1.1 MD11G1073800.v1.1 MD12G1166600.v1.1
prunus_persica	Prupe.6G057100_v2.0.a1 Prupe.6G057100_v2.0.a1 Prupe.6G277400_v2.0.a1 Prupe.6G277400_v2.0.a1
pyrus_communis	pycom03g05570 pycom11g06120 pycom12g15850
rosa_chinensis	RchiOBHm_Chr3g0463121 RchiOBHm_Chr5g0069661
rosa_laevigata	RLG00000024811 RLG00000036082
rosa_multiflora	Rmu_sc0000738.1_g000037 Rmu_sc0000766.1_g000040 Rmu_sc0008595.1_g000001
rosa_roxburghii	Rroxscaffold_1G00011420 Rroxscaffold_6G00416950
rosa_rugosa	Rorug03G0061500 Rorug03G0061600 Rorug03G0061700 Rorug05G0399000 Rorug05G0399100
rosa_samantha	Rh3AG119800 Rh3BG124200 Rh3CG126200 Rh3DG125200 Rh5AG455800 Rh5BG474800 Rh5CG498200 Rh5DG486300
rosa_wichuraiana	Rw3G010130 Rw5G042530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	311
AasI	GACNNNNNNGTC	1 cut(s)	184
Acc16I	TGCGCA	1 cut(s)	1036
Acc36I	ACCTGC	1 cut(s)	893
AciI	CCGC	3 cut(s)	164, 745, 1008
AclWI	GGATC	1 cut(s)	888
AcsI	RAATTY	1 cut(s)	573
AcuI	CTGAAG	1 cut(s)	339
AdeI	CACNNNGTG	2 cut(s)	200, 1018
AfaI	GTAC	5 cut(s)	23, 275, 544, 774, 1158
AfiI	CCNNNNNNNGG	2 cut(s)	250, 626
AgsI	TTSAA	7 cut(s)	350, 571, 727, 736, 887, 1031, 1085
AjiI	CACGTC	1 cut(s)	297
AjnI	CCWGG	2 cut(s)	127, 613
AluBI	AGCT	4 cut(s)	43, 112, 530, 1088
AluI	AGCT	4 cut(s)	43, 112, 530, 1088
Alw26I	GTCTC	2 cut(s)	26, 261
AlwI	GGATC	1 cut(s)	888
AoxI	GGCC	6 cut(s)	46, 131, 331, 672, 720, 1140
ApeKI	GCWGC	1 cut(s)	899
ApoI	RAATTY	1 cut(s)	573
Asp700I	GAANNNNTTC	1 cut(s)	740
AspA2I	CCTAGG	1 cut(s)	983
AspLEI	GCGC	1 cut(s)	1037
AspS9I	GGNCC	5 cut(s)	47, 131, 617, 662, 672
AsuHPI	GGTGA	2 cut(s)	511, 947
AvaII	GGWCC	2 cut(s)	617, 662
AvrII	CCTAGG	1 cut(s)	983
BaeGI	GKGCMC	1 cut(s)	1014
BaeI	ACNNNNGTAYC	2 cut(s)	526, 559
BanII	GRGCYC	1 cut(s)	805
BbvI	GCAGC	1 cut(s)	911
BccI	CCATC	4 cut(s)	663, 755, 908, 926
BcgI	CGANNNNNNTGC	2 cut(s)	49, 83
BciT130I	CCWGG	2 cut(s)	129, 615
BclI	TGATCA	1 cut(s)	829
BcoDI	GTCTC	2 cut(s)	26, 261
BfaI	CTAG	3 cut(s)	585, 984, 1165
BfmI	CTRYAG	3 cut(s)	151, 413, 562
BfuAI	ACCTGC	1 cut(s)	893
BisI	GCNGC	1 cut(s)	900
BlnI	CCTAGG	1 cut(s)	983
BlsI	GCNGC	1 cut(s)	901
Bme1390I	CCNGG	2 cut(s)	129, 615
Bme18I	GGWCC	2 cut(s)	617, 662
BmgBI	CACGTC	1 cut(s)	297
BmgT120I	GGNCC	5 cut(s)	47, 131, 617, 662, 672
BmiI	GGNNCC	1 cut(s)	386
BmrFI	CCNGG	2 cut(s)	129, 615
BmsI	GCATC	1 cut(s)	967
BsaBI	GATNNNNATC	1 cut(s)	828
BsaI	GGTCTC	2 cut(s)	26, 261
BsaJI	CCNNGG	3 cut(s)	127, 128, 983
Bsc4I	CCNNNNNNNGG	2 cut(s)	250, 626
Bse1I	ACTGG	2 cut(s)	640, 1143
Bse8I	GATNNNNATC	1 cut(s)	828
BseBI	CCWGG	2 cut(s)	129, 615
BseDI	CCNNGG	3 cut(s)	127, 128, 983
BseGI	GGATG	1 cut(s)	478
BseJI	GATNNNNATC	1 cut(s)	828
BseLI	CCNNNNNNNGG	2 cut(s)	250, 626
BseMII	CTCAG	2 cut(s)	21, 353
BseNI	ACTGG	2 cut(s)	640, 1143
BseRI	GAGGAG	1 cut(s)	797
BseSI	GKGCMC	1 cut(s)	1014
BseXI	GCAGC	1 cut(s)	911
BseYI	CCCAGC	1 cut(s)	290
BsgI	GTGCAG	1 cut(s)	110
BshFI	GGCC	6 cut(s)	48, 133, 333, 674, 722, 1142
BslFI	GGGAC	1 cut(s)	1001
BslI	CCNNNNNNNGG	2 cut(s)	250, 626
BsmAI	GTCTC	2 cut(s)	26, 261
BsmFI	GGGAC	1 cut(s)	1001
BsmI	GAATGC	2 cut(s)	508, 1037
BsnI	GGCC	6 cut(s)	48, 133, 333, 674, 722, 1142
Bso31I	GGTCTC	2 cut(s)	26, 261
Bsp1286I	GDGCHC	2 cut(s)	805, 1014
Bsp143I	GATC	3 cut(s)	622, 829, 880
BspACI	CCGC	3 cut(s)	164, 745, 1008
BspANI	GGCC	6 cut(s)	48, 133, 333, 674, 722, 1142
BspCNI	CTCAG	2 cut(s)	22, 352
BspLI	GGNNCC	1 cut(s)	386
BspMAI	CTGCAG	2 cut(s)	417, 566
BspMI	ACCTGC	1 cut(s)	893
BspPI	GGATC	1 cut(s)	888
BspQI	GCTCTTC	2 cut(s)	102, 345
BspTNI	GGTCTC	2 cut(s)	26, 261
BsrI	ACTGG	2 cut(s)	640, 1143
BssECI	CCNNGG	3 cut(s)	127, 128, 983
BssMI	GATC	3 cut(s)	622, 829, 880
BssT1I	CCWWGG	1 cut(s)	983
Bst2UI	CCWGG	2 cut(s)	129, 615
Bst4CI	ACNGT	5 cut(s)	200, 499, 654, 1016, 1132
Bst6I	CTCTTC	3 cut(s)	69, 102, 345
BstC8I	GCNNGC	1 cut(s)	1010
BstDEI	CTNAG	4 cut(s)	30, 37, 339, 926
BstEII	GGTNACC	1 cut(s)	455
BstENI	CCTNNNNNAGG	1 cut(s)	248
BstF5I	GGATG	1 cut(s)	478
BstHHI	GCGC	1 cut(s)	1037
BstKTI	GATC	3 cut(s)	625, 832, 883
BstMAI	GTCTC	2 cut(s)	26, 261
BstMBI	GATC	3 cut(s)	622, 829, 880
BstMWI	GCNNNNNNNGC	1 cut(s)	352
BstNI	CCWGG	2 cut(s)	129, 615
BstPI	GGTNACC	1 cut(s)	455
BstSCI	CCNGG	2 cut(s)	127, 613
BstSFI	CTRYAG	3 cut(s)	151, 413, 562
BstSLI	GKGCMC	1 cut(s)	1014
BstV1I	GCAGC	1 cut(s)	911
BstX2I	RGATCY	1 cut(s)	880
BstYI	RGATCY	1 cut(s)	880
BsuRI	GGCC	6 cut(s)	48, 133, 333, 674, 722, 1142
BtgZI	GCGATG	1 cut(s)	713
BtrI	CACGTC	1 cut(s)	297
BtsCI	GGATG	1 cut(s)	478
BtsIMutI	CAGTG	3 cut(s)	205, 347, 1012
BveI	ACCTGC	1 cut(s)	893
Cac8I	GCNNGC	1 cut(s)	1010
CfoI	GCGC	1 cut(s)	1037
Cfr13I	GGNCC	5 cut(s)	47, 131, 617, 662, 672
Csp6I	GTAC	5 cut(s)	22, 274, 543, 773, 1157
CviAII	CATG	4 cut(s)	381, 395, 779, 1005
CviQI	GTAC	5 cut(s)	22, 274, 543, 773, 1157
DdeI	CTNAG	4 cut(s)	30, 37, 339, 926
DpnI	GATC	3 cut(s)	624, 831, 882
DpnII	GATC	3 cut(s)	622, 829, 880
DraIII	CACNNNGTG	2 cut(s)	200, 1018
DrdI	GACNNNNNNGTC	1 cut(s)	184
DseDI	GACNNNNNNGTC	1 cut(s)	184
Eam1104I	CTCTTC	3 cut(s)	69, 102, 345
EarI	CTCTTC	3 cut(s)	69, 102, 345
Eco130I	CCWWGG	1 cut(s)	983
Eco147I	AGGCCT	1 cut(s)	333
Eco24I	GRGCYC	1 cut(s)	805
Eco31I	GGTCTC	2 cut(s)	26, 261
Eco47I	GGWCC	2 cut(s)	617, 662
Eco57I	CTGAAG	1 cut(s)	339
Eco91I	GGTNACC	1 cut(s)	455
EcoNI	CCTNNNNNAGG	1 cut(s)	248
EcoO65I	GGTNACC	1 cut(s)	455
EcoRII	CCWGG	2 cut(s)	127, 613
EcoT14I	CCWWGG	1 cut(s)	983
EcoT38I	GRGCYC	1 cut(s)	805
ErhI	CCWWGG	1 cut(s)	983
FaeI	CATG	4 cut(s)	384, 398, 782, 1008
FalI	AAGNNNNNCTT	8 cut(s)	318, 350, 514, 546, 530, 562, 1033, 1065
FaqI	GGGAC	1 cut(s)	1001
FatI	CATG	4 cut(s)	380, 394, 778, 1004
FauI	CCCGC	1 cut(s)	1001
FauNDI	CATATG	1 cut(s)	658
FbaI	TGATCA	1 cut(s)	829
Fnu4HI	GCNGC	1 cut(s)	900
FokI	GGATG	1 cut(s)	485
FriOI	GRGCYC	1 cut(s)	805
Fsp4HI	GCNGC	1 cut(s)	900
FspBI	CTAG	3 cut(s)	585, 984, 1165
FspI	TGCGCA	1 cut(s)	1036
GlaI	GCGC	1 cut(s)	1036
GluI	GCNGC	1 cut(s)	900
GsaI	CCCAGC	1 cut(s)	294
HaeIII	GGCC	6 cut(s)	48, 133, 333, 674, 722, 1142
HhaI	GCGC	1 cut(s)	1037
Hin1II	CATG	4 cut(s)	384, 398, 782, 1008
Hin6I	GCGC	1 cut(s)	1035
HinP1I	GCGC	1 cut(s)	1035
HincII	GTYRAC	1 cut(s)	606
HindII	GTYRAC	1 cut(s)	606
HindIII	AAGCTT	1 cut(s)	528
HinfI	GANTC	5 cut(s)	10, 61, 218, 409, 857
HpaI	GTTAAC	1 cut(s)	606
HphI	GGTGA	2 cut(s)	511, 947
Hpy166II	GTNNAC	5 cut(s)	22, 543, 606, 1114, 1159
Hpy188I	TCNGA	4 cut(s)	31, 190, 433, 791
Hpy188III	TCNNGA	4 cut(s)	620, 733, 884, 911
Hpy8I	GTNNAC	5 cut(s)	22, 543, 606, 1114, 1159
Hpy99I	CGWCG	1 cut(s)	957
HpyAV	CCTTC	4 cut(s)	314, 323, 556, 733
HpyCH4III	ACNGT	5 cut(s)	200, 499, 654, 1016, 1132
HpyCH4IV	ACGT	3 cut(s)	296, 428, 557
HpyCH4V	TGCA	7 cut(s)	70, 91, 415, 484, 564, 965, 1105
HpyF10VI	GCNNNNNNNGC	1 cut(s)	352
HpyF3I	CTNAG	4 cut(s)	30, 37, 339, 926
HpySE526I	ACGT	3 cut(s)	296, 428, 557
Hsp92II	CATG	4 cut(s)	384, 398, 782, 1008
HspAI	GCGC	1 cut(s)	1035
Ksp22I	TGATCA	1 cut(s)	829
KspAI	GTTAAC	1 cut(s)	606
Kzo9I	GATC	3 cut(s)	622, 829, 880
LguI	GCTCTTC	2 cut(s)	102, 345
LmnI	GCTCC	2 cut(s)	695, 985
Lsp1109I	GCAGC	1 cut(s)	911
LweI	GCATC	1 cut(s)	967
MaeI	CTAG	3 cut(s)	585, 984, 1165
MaeII	ACGT	3 cut(s)	296, 428, 557
MaeIII	GTNAC	5 cut(s)	175, 455, 749, 921, 941
MalI	GATC	3 cut(s)	624, 831, 882
MboI	GATC	3 cut(s)	622, 829, 880
MboII	GAAGA	5 cut(s)	56, 119, 362, 770, 899
MflI	RGATCY	1 cut(s)	880
MhlI	GDGCHC	2 cut(s)	805, 1014
MluCI	AATT	6 cut(s)	312, 436, 485, 573, 966, 1078
MlyI	GAGTC	1 cut(s)	55
MroXI	GAANNNNTTC	1 cut(s)	740
MseI	TTAA	4 cut(s)	168, 488, 605, 1125
MslI	CAYNNNNRTG	3 cut(s)	86, 379, 399
MspA1I	CMGCKG	1 cut(s)	747
MspR9I	CCNGG	2 cut(s)	129, 615
Mva1269I	GAATGC	2 cut(s)	508, 1037
MvaI	CCWGG	2 cut(s)	129, 615
MwoI	GCNNNNNNNGC	1 cut(s)	352
NdeI	CATATG	1 cut(s)	658
NdeII	GATC	3 cut(s)	622, 829, 880
NlaIII	CATG	4 cut(s)	384, 398, 782, 1008
NlaIV	GGNNCC	1 cut(s)	386
NmuCI	GTSAC	2 cut(s)	175, 921
NsbI	TGCGCA	1 cut(s)	1036
PasI	CCCWGGG	1 cut(s)	128
PceI	AGGCCT	1 cut(s)	333
PciSI	GCTCTTC	2 cut(s)	102, 345
PctI	GAATGC	2 cut(s)	508, 1037
PdmI	GAANNNNTTC	1 cut(s)	740
PfeI	GAWTC	4 cut(s)	10, 218, 409, 857
PflFI	GACNNNGTC	1 cut(s)	184
PkrI	GCNGC	1 cut(s)	901
PleI	GAGTC	1 cut(s)	55
PpsI	GAGTC	1 cut(s)	55
PsiI	TTATAA	1 cut(s)	311
Psp6I	CCWGG	2 cut(s)	127, 613
PspEI	GGTNACC	1 cut(s)	455
PspFI	CCCAGC	1 cut(s)	290
PspGI	CCWGG	2 cut(s)	127, 613
PspN4I	GGNNCC	1 cut(s)	386
PspPI	GGNCC	5 cut(s)	47, 131, 617, 662, 672
PstI	CTGCAG	2 cut(s)	417, 566
PsuI	RGATCY	1 cut(s)	880
PsyI	GACNNNGTC	1 cut(s)	184
RsaI	GTAC	5 cut(s)	23, 275, 544, 774, 1158
RsaNI	GTAC	5 cut(s)	22, 274, 543, 773, 1157
RseI	CAYNNNNRTG	3 cut(s)	86, 379, 399
SapI	GCTCTTC	2 cut(s)	102, 345
SaqAI	TTAA	4 cut(s)	168, 488, 605, 1125
SatI	GCNGC	1 cut(s)	900
Sau3AI	GATC	3 cut(s)	622, 829, 880
Sau96I	GGNCC	5 cut(s)	47, 131, 617, 662, 672
SchI	GAGTC	1 cut(s)	55
ScrFI	CCNGG	2 cut(s)	129, 615
SduI	GDGCHC	2 cut(s)	805, 1014
SfaNI	GCATC	1 cut(s)	967
SfcI	CTRYAG	3 cut(s)	151, 413, 562
SinI	GGWCC	2 cut(s)	617, 662
SmiMI	CAYNNNNRTG	3 cut(s)	86, 379, 399
Sse9I	AATT	6 cut(s)	312, 436, 485, 573, 966, 1078
SseBI	AGGCCT	1 cut(s)	333
SsiI	CCGC	3 cut(s)	164, 745, 1008
SspMI	CTAG	3 cut(s)	585, 984, 1165
StuI	AGGCCT	1 cut(s)	333
StyD4I	CCNGG	2 cut(s)	127, 613
StyI	CCWWGG	1 cut(s)	983
TaaI	ACNGT	5 cut(s)	200, 499, 654, 1016, 1132
TaiI	ACGT	3 cut(s)	299, 431, 560
TaqI	TCGA	2 cut(s)	59, 866
TasI	AATT	6 cut(s)	312, 436, 485, 573, 966, 1078
TatI	WGTACW	2 cut(s)	772, 1156
TfiI	GAWTC	4 cut(s)	10, 218, 409, 857
Tru1I	TTAA	4 cut(s)	168, 488, 605, 1125
Tru9I	TTAA	4 cut(s)	168, 488, 605, 1125
TscAI	CASTG	3 cut(s)	205, 347, 1019
TseFI	GTSAC	2 cut(s)	175, 921
TseI	GCWGC	1 cut(s)	899
Tsp45I	GTSAC	2 cut(s)	175, 921
TspDTI	ATGAA	4 cut(s)	383, 771, 804, 837
TspRI	CASTG	3 cut(s)	205, 347, 1019
Tth111I	GACNNNGTC	1 cut(s)	184
VpaK11BI	GGWCC	2 cut(s)	617, 662
XagI	CCTNNNNNAGG	1 cut(s)	248
XapI	RAATTY	1 cut(s)	573
XmaJI	CCTAGG	1 cut(s)	983
XmnI	GAANNNNTTC	1 cut(s)	740
XspI	CTAG	3 cut(s)	585, 984, 1165

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