Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0012930

Physical Location & Seq

Genomic Coordinates Reverse (-)

3082069 .. 3085976

Gene Structure 3908 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG042000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1140 bp

ATGGCGACTCAATTCCCGGACGATTTCAAGTGCCCGATTTCGCTGGAAATAATGTCCGACCCGGTTATACTTCCTTCGGGTCACACCTTCGACCGGCCCAACATCCAACGCTGGCTCGACGCCGGCCACCGTACTTGCCCACTTACCAAACTGCCCCTCCCCGAACACCCCTCCCTCATCCCCAACCACGCCCTCCGCAGCTTGATTTCCAATTATACCCTTCCCTCCCCTACACAATTACACAACACCCAGCTCCCCCACCAGAGCCAGAGCCAGAGCCAGCCCAACCAGCAACCCCAAACCCTAATCGCGACGCTGACTTCGGCGGCGTCGAGCCTGGACTCGAAGCTCGAGTCGCTCGACCAGCTCAACCGCCTGTCGAAGCGGGACGCGGCGTTTCGCGCCAAGCTGACGGAGTCCGGCGCCGTCGCCGCCGTGCTGAAGTGCGTGGACTCCGACGAGCCGAGCCTGCAGGAGAAGGCTCTGACTCTGCTGCTGAATGTGAGCTTGGACGACGACAACAAGGTCGGTCTGGTGGCGGAAGGAGCGATTGCTAGAGTCGTGGCGGTGCTGCAAGGCGGCTCGCCGAACAGCCGGGCCGTGGCGGCGACGATGTTGACCAGCTTGGCCGTCGTGGAGGTCAACAAGGCCACAATCGGGTCGTACCCGTATGCAATTCGGGCTCTTGTTTCGCTCCTCAGGGACGGCAAGGGCCGGGAGAAGAAAGAGGCGGCGACGGCGCTCTATGCTATCTGTTCGTTTCCGGACAATCGGCGGCGGGCGGTGGAGTGCGGTGCGGTTTCGATTTTGATCCGAATTGCGGATTCGGGTTTGGAGCGGGCCGTTGAGGTTCTGGGCCTGTTGGCGAAAAGCAAGGATGGGAGAGAAGAGATGCAGAGGTTTAGTGGGTGTGTGAAGATTTTAGTGAGGGTTTTAGAGAACGGGAGCTCCAGGGGAATTCAGTATGCTCTGCTTACATTGAGTTCGCTTTGCCATTTCAGTGAGAAAATGTGTGTGGAAGCAAGAAAAGAAGGCGTCTTAGCGATTTGCGTTCGTTTGGTTGAAGATGATAATGAAAAGATTAGAAAAAATGCTTCTTATTTGATTCAGGTTCTGGATGGGAACCATTCCATGATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016567 GO:0019538 GO:0032446 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0070647 GO:0071704 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

U-box

Protein Analysis

379

Amino Acids

41.21

Weight (kDa)

8.04

Isoelectric Point (pI)

48.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
U-box	PF04564	6 - 72	2.4e-20	U-box domain
zf-RING_UBOX	PF13445	11 - 47	2e-06	RING-type zinc-finger
ARM_PUB	PF25598	113 - 375	1.4e-24	Plant U-box protein ARM repeat region
ARM_ARMC5	PF24768	116 - 275	3.5e-07	ARMC5

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: OG0012930)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G21350
fragaria_vesca	FvH4_3g03220
malus_domestica	MD05G1334100.v1.1 MD10G1309000.v1.1
prunus_persica	Prupe.4G031100_v2.0.a1 Prupe.4G031100_v2.0.a1
pyrus_communis	pycom05g30580 pycom10g26040
rosa_chinensis	RchiOBHm_Chr5g0004861
rosa_laevigata	RLG00000031267
rosa_multiflora	Rmu_sc0010871.1_g000001
rosa_roxburghii	Rroxscaffold_1G00070760
rosa_rugosa	Rorug04G0414800
rosa_samantha	Rh5AG042300 Rh5BG042000 Rh5CG045800 Rh5DG042400
rosa_wichuraiana	Rw5G004090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	524
AccB1I	GGYRCC	1 cut(s)	422
AccBSI	CCGCTC	1 cut(s)	838
AccII	CGCG	3 cut(s)	311, 392, 402
AccIII	TCCGGA	1 cut(s)	763
AclWI	GGATC	1 cut(s)	805
AcoI	YGGCCR	2 cut(s)	124, 627
AcsI	RAATTY	1 cut(s)	957
AcuI	CTGAAG	1 cut(s)	461
AcyI	GRCGYC	4 cut(s)	120, 329, 423, 1035
AfaI	GTAC	2 cut(s)	133, 665
AfiI	CCNNNNNNNGG	4 cut(s)	93, 601, 657, 820
AgsI	TTSAA	2 cut(s)	28, 1064
AjnI	CCWGG	2 cut(s)	336, 950
AjuI	GAANNNNNNNTTGG	2 cut(s)	491, 523
AloI	GAACNNNNNNTCC	2 cut(s)	932, 964
AluBI	AGCT	8 cut(s)	201, 253, 349, 367, 409, 507, 624, 948
AluI	AGCT	8 cut(s)	201, 253, 349, 367, 409, 507, 624, 948
Alw21I	GWGCWC	1 cut(s)	950
AlwI	GGATC	1 cut(s)	805
AlwNI	CAGNNNCTG	1 cut(s)	1114
Ama87I	CYCGRG	1 cut(s)	350
Aor13HI	TCCGGA	1 cut(s)	763
AoxI	GGCC	8 cut(s)	95, 124, 597, 627, 648, 712, 840, 856
ApeKI	GCWGC	3 cut(s)	198, 493, 571
ApoI	RAATTY	1 cut(s)	957
ArsI	GACNNNNNNTTYG	4 cut(s)	304, 336, 338, 370
AspLEI	GCGC	3 cut(s)	404, 425, 742
AspS9I	GGNCC	5 cut(s)	96, 597, 712, 840, 856
AsuC2I	CCSGG	4 cut(s)	17, 62, 596, 716
AvaI	CYCGRG	1 cut(s)	350
AxyI	CCTNAGG	1 cut(s)	698
BaeGI	GKGCMC	1 cut(s)	35
BanI	GGYRCC	1 cut(s)	422
BanII	GRGCYC	2 cut(s)	685, 950
Bbv12I	GWGCWC	1 cut(s)	950
BbvI	GCAGC	3 cut(s)	210, 480, 558
BccI	CCATC	2 cut(s)	872, 1112
BceAI	ACGGC	7 cut(s)	410, 419, 584, 614, 721, 753, 827
BciT130I	CCWGG	2 cut(s)	338, 952
BcnI	CCSGG	4 cut(s)	17, 62, 596, 716
BfaI	CTAG	1 cut(s)	555
BfmI	CTRYAG	1 cut(s)	470
BfoI	RGCGCY	2 cut(s)	426, 743
BglI	GCCNNNNNGGC	1 cut(s)	605
Bme1390I	CCNGG	6 cut(s)	17, 62, 338, 596, 716, 952
BmeT110I	CYCGRG	1 cut(s)	350
BmgT120I	GGNCC	5 cut(s)	96, 597, 712, 840, 856
BmiI	GGNNCC	2 cut(s)	424, 1124
BmrFI	CCNGG	6 cut(s)	17, 62, 338, 596, 716, 952
BmsI	GCATC	1 cut(s)	882
BpmI	CTGGAG	1 cut(s)	934
BpuMI	CCSGG	4 cut(s)	17, 62, 596, 716
BsaBI	GATNNNNATC	1 cut(s)	809
BsaHI	GRCGYC	4 cut(s)	120, 329, 423, 1035
BsaJI	CCNNGG	2 cut(s)	600, 951
BsaWI	WCCGGW	1 cut(s)	763
BsaXI	ACNNNNNCTCC	4 cut(s)	141, 171, 932, 962
Bsc4I	CCNNNNNNNGG	4 cut(s)	93, 601, 657, 820
Bse118I	RCCGGY	2 cut(s)	93, 122
Bse21I	CCTNAGG	1 cut(s)	698
Bse8I	GATNNNNATC	1 cut(s)	809
BseAI	TCCGGA	1 cut(s)	763
BseBI	CCWGG	2 cut(s)	338, 952
BseDI	CCNNGG	2 cut(s)	600, 951
BseGI	GGATG	4 cut(s)	102, 177, 883, 1123
BseJI	GATNNNNATC	1 cut(s)	809
BseLI	CCNNNNNNNGG	4 cut(s)	93, 601, 657, 820
BseMII	CTCAG	1 cut(s)	712
BseRI	GAGGAG	1 cut(s)	686
BseSI	GKGCMC	1 cut(s)	35
BseXI	GCAGC	3 cut(s)	210, 480, 558
BseYI	CCCAGC	1 cut(s)	249
Bsh1236I	CGCG	3 cut(s)	311, 392, 402
Bsh1285I	CGRYCG	1 cut(s)	94
BshFI	GGCC	8 cut(s)	97, 126, 599, 629, 650, 714, 842, 858
BshNI	GGYRCC	1 cut(s)	422
BsiEI	CGRYCG	1 cut(s)	94
BsiHKAI	GWGCWC	1 cut(s)	950
BsiHKCI	CYCGRG	1 cut(s)	350
BsiSI	CCGG	8 cut(s)	17, 62, 94, 123, 420, 595, 715, 764
BslFI	GGGAC	2 cut(s)	401, 716
BslI	CCNNNNNNNGG	4 cut(s)	93, 601, 657, 820
BsmFI	GGGAC	2 cut(s)	401, 716
BsnI	GGCC	8 cut(s)	97, 126, 599, 629, 650, 714, 842, 858
BsoBI	CYCGRG	1 cut(s)	350
Bsp1286I	GDGCHC	3 cut(s)	35, 685, 950
Bsp13I	TCCGGA	1 cut(s)	763
Bsp143I	GATC	1 cut(s)	810
Bsp68I	TCGCGA	1 cut(s)	311
BspANI	GGCC	8 cut(s)	97, 126, 599, 629, 650, 714, 842, 858
BspCNI	CTCAG	1 cut(s)	711
BspEI	TCCGGA	1 cut(s)	763
BspFNI	CGCG	3 cut(s)	311, 392, 402
BspLI	GGNNCC	2 cut(s)	424, 1124
BspMAI	CTGCAG	1 cut(s)	474
BspPI	GGATC	1 cut(s)	805
BspT107I	GGYRCC	1 cut(s)	422
BsrBI	CCGCTC	1 cut(s)	838
BsrFI	RCCGGY	2 cut(s)	93, 122
BssAI	RCCGGY	2 cut(s)	93, 122
BssECI	CCNNGG	2 cut(s)	600, 951
BssMI	GATC	1 cut(s)	810
BssNI	GRCGYC	4 cut(s)	120, 329, 423, 1035
Bst2UI	CCWGG	2 cut(s)	338, 952
Bst4CI	ACNGT	1 cut(s)	131
Bst6I	CTCTTC	1 cut(s)	882
BstACI	GRCGYC	4 cut(s)	120, 329, 423, 1035
BstC8I	GCNNGC	7 cut(s)	113, 124, 281, 470, 584, 780, 840
BstDEI	CTNAG	2 cut(s)	698, 1039
BstDSI	CCRYGG	1 cut(s)	600
BstF5I	GGATG	4 cut(s)	102, 177, 883, 1123
BstFNI	CGCG	3 cut(s)	311, 392, 402
BstH2I	RGCGCY	2 cut(s)	426, 743
BstHHI	GCGC	3 cut(s)	404, 425, 742
BstKTI	GATC	1 cut(s)	813
BstMBI	GATC	1 cut(s)	810
BstMCI	CGRYCG	1 cut(s)	94
BstNI	CCWGG	2 cut(s)	338, 952
BstSCI	CCNGG	6 cut(s)	15, 60, 336, 594, 714, 950
BstSFI	CTRYAG	1 cut(s)	470
BstSLI	GKGCMC	1 cut(s)	35
BstUI	CGCG	3 cut(s)	311, 392, 402
BstV1I	GCAGC	3 cut(s)	210, 480, 558
Bsu36I	CCTNAGG	1 cut(s)	698
BsuRI	GGCC	8 cut(s)	97, 126, 599, 629, 650, 714, 842, 858
BtgI	CCRYGG	1 cut(s)	600
BtsCI	GGATG	4 cut(s)	102, 177, 883, 1123
BtsIMutI	CAGTG	1 cut(s)	1006
BtuMI	TCGCGA	1 cut(s)	311
Cac8I	GCNNGC	7 cut(s)	113, 124, 281, 470, 584, 780, 840
CaiI	CAGNNNCTG	1 cut(s)	1114
CfoI	GCGC	3 cut(s)	404, 425, 742
Cfr10I	RCCGGY	2 cut(s)	93, 122
Cfr13I	GGNCC	5 cut(s)	96, 597, 712, 840, 856
CseI	GACGC	5 cut(s)	128, 318, 322, 398, 1024
Csp6I	GTAC	2 cut(s)	132, 664
CspCI	CAANNNNNGTGG	2 cut(s)	116, 151
CviAII	CATG	1 cut(s)	1132
CviQI	GTAC	2 cut(s)	132, 664
DdeI	CTNAG	2 cut(s)	698, 1039
DinI	GGCGCC	1 cut(s)	424
DpnI	GATC	1 cut(s)	812
DpnII	GATC	1 cut(s)	810
DrdI	GACNNNNNNGTC	1 cut(s)	524
DseDI	GACNNNNNNGTC	1 cut(s)	524
EaeI	YGGCCR	2 cut(s)	124, 627
Eam1104I	CTCTTC	1 cut(s)	882
EarI	CTCTTC	1 cut(s)	882
EciI	GGCGGA	1 cut(s)	554
Ecl136II	GAGCTC	1 cut(s)	948
Eco24I	GRGCYC	2 cut(s)	685, 950
Eco53kI	GAGCTC	1 cut(s)	948
Eco57I	CTGAAG	1 cut(s)	461
Eco81I	CCTNAGG	1 cut(s)	698
Eco88I	CYCGRG	1 cut(s)	350
EcoICRI	GAGCTC	1 cut(s)	948
EcoRI	GAATTC	1 cut(s)	957
EcoRII	CCWGG	2 cut(s)	336, 950
EcoT38I	GRGCYC	2 cut(s)	685, 950
EgeI	GGCGCC	1 cut(s)	424
EheI	GGCGCC	1 cut(s)	424
FaeI	CATG	1 cut(s)	1135
FaiI	YATR	6 cut(s)	68, 216, 672, 747, 966, 1133
FaqI	GGGAC	2 cut(s)	401, 716
FatI	CATG	1 cut(s)	1131
FauI	CCCGC	3 cut(s)	378, 771, 831
FokI	GGATG	4 cut(s)	89, 164, 890, 1130
FriOI	GRGCYC	2 cut(s)	685, 950
FspBI	CTAG	1 cut(s)	555
GlaI	GCGC	3 cut(s)	403, 424, 741
GsaI	CCCAGC	1 cut(s)	253
GsuI	CTGGAG	1 cut(s)	934
HaeII	RGCGCY	2 cut(s)	426, 743
HaeIII	GGCC	8 cut(s)	97, 126, 599, 629, 650, 714, 842, 858
HapII	CCGG	8 cut(s)	17, 62, 94, 123, 420, 595, 715, 764
HgaI	GACGC	5 cut(s)	128, 318, 322, 398, 1024
HhaI	GCGC	3 cut(s)	404, 425, 742
Hin1I	GRCGYC	4 cut(s)	120, 329, 423, 1035
Hin1II	CATG	1 cut(s)	1135
Hin6I	GCGC	3 cut(s)	402, 423, 740
HinP1I	GCGC	3 cut(s)	402, 423, 740
HincII	GTYRAC	2 cut(s)	618, 643
HindII	GTYRAC	2 cut(s)	618, 643
HinfI	GANTC	9 cut(s)	7, 341, 353, 416, 452, 487, 558, 824, 1105
HpaII	CCGG	8 cut(s)	17, 62, 94, 123, 420, 595, 715, 764
Hpy166II	GTNNAC	3 cut(s)	451, 618, 643
Hpy188I	TCNGA	4 cut(s)	58, 457, 486, 815
Hpy188III	TCNNGA	3 cut(s)	310, 764, 1115
Hpy8I	GTNNAC	3 cut(s)	451, 618, 643
Hpy99I	CGWCG	9 cut(s)	122, 316, 334, 431, 461, 518, 613, 635, 739
HpyAV	CCTTC	6 cut(s)	84, 97, 230, 472, 536, 1025
HpyCH4III	ACNGT	1 cut(s)	131
HpyCH4V	TGCA	4 cut(s)	472, 574, 674, 895
HpyF3I	CTNAG	2 cut(s)	698, 1039
Hsp92I	GRCGYC	4 cut(s)	120, 329, 423, 1035
Hsp92II	CATG	1 cut(s)	1135
HspAI	GCGC	3 cut(s)	402, 423, 740
KasI	GGCGCC	1 cut(s)	422
Kpn2I	TCCGGA	1 cut(s)	763
KroI	GCCGGC	1 cut(s)	122
KroNI	GCCGGC	1 cut(s)	124
Kzo9I	GATC	1 cut(s)	810
LmnI	GCTCC	6 cut(s)	258, 545, 699, 835, 945, 953
Lsp1109I	GCAGC	3 cut(s)	210, 480, 558
LweI	GCATC	1 cut(s)	882
MaeI	CTAG	1 cut(s)	555
MaeIII	GTNAC	1 cut(s)	80
MalI	GATC	1 cut(s)	812
MbiI	CCGCTC	1 cut(s)	838
MboI	GATC	1 cut(s)	810
MboII	GAAGA	4 cut(s)	733, 899, 928, 1076
MhlI	GDGCHC	3 cut(s)	35, 685, 950
MluCI	AATT	6 cut(s)	11, 211, 236, 675, 816, 957
Mly113I	GGCGCC	1 cut(s)	423
MlyI	GAGTC	6 cut(s)	335, 362, 425, 446, 481, 567
MmeI	TCCRAC	3 cut(s)	81, 130, 480
MroI	TCCGGA	1 cut(s)	763
MroNI	GCCGGC	1 cut(s)	122
MslI	CAYNNNNRTG	1 cut(s)	999
MspI	CCGG	8 cut(s)	17, 62, 94, 123, 420, 595, 715, 764
MspR9I	CCNGG	6 cut(s)	17, 62, 338, 596, 716, 952
MvaI	CCWGG	2 cut(s)	338, 952
MvnI	CGCG	3 cut(s)	311, 392, 402
NaeI	GCCGGC	1 cut(s)	124
NarI	GGCGCC	1 cut(s)	423
NciI	CCSGG	4 cut(s)	17, 62, 596, 716
NdeII	GATC	1 cut(s)	810
NgoMIV	GCCGGC	1 cut(s)	122
NlaIII	CATG	1 cut(s)	1135
NlaIV	GGNNCC	2 cut(s)	424, 1124
NmeAIII	GCCGAG	1 cut(s)	489
NmuCI	GTSAC	1 cut(s)	80
NruI	TCGCGA	1 cut(s)	311
PaeR7I	CTCGAG	1 cut(s)	350
PcsI	WCGNNNNNNNCGW	2 cut(s)	329, 357
PdiI	GCCGGC	1 cut(s)	124
PfeI	GAWTC	2 cut(s)	824, 1105
PflFI	GACNNNGTC	1 cut(s)	415
PfoI	TCCNGGA	1 cut(s)	15
PleI	GAGTC	6 cut(s)	335, 361, 424, 446, 481, 566
PluTI	GGCGCC	1 cut(s)	426
PpsI	GAGTC	6 cut(s)	335, 361, 424, 446, 481, 566
Psp124BI	GAGCTC	1 cut(s)	950
Psp6I	CCWGG	2 cut(s)	336, 950
PspFI	CCCAGC	1 cut(s)	249
PspGI	CCWGG	2 cut(s)	336, 950
PspN4I	GGNNCC	2 cut(s)	424, 1124
PspPI	GGNCC	5 cut(s)	96, 597, 712, 840, 856
PspXI	VCTCGAGB	1 cut(s)	350
PstI	CTGCAG	1 cut(s)	474
PstNI	CAGNNNCTG	1 cut(s)	1114
PsyI	GACNNNGTC	1 cut(s)	415
RruI	TCGCGA	1 cut(s)	311
RsaI	GTAC	2 cut(s)	133, 665
RsaNI	GTAC	2 cut(s)	132, 664
RseI	CAYNNNNRTG	1 cut(s)	999
SacI	GAGCTC	1 cut(s)	950
Sau3AI	GATC	1 cut(s)	810
Sau96I	GGNCC	5 cut(s)	96, 597, 712, 840, 856
SbfI	CCTGCAGG	1 cut(s)	474
SchI	GAGTC	6 cut(s)	335, 362, 425, 446, 481, 567
ScrFI	CCNGG	6 cut(s)	17, 62, 338, 596, 716, 952
SdaI	CCTGCAGG	1 cut(s)	474
SduI	GDGCHC	3 cut(s)	35, 685, 950
SfaNI	GCATC	1 cut(s)	882
SfcI	CTRYAG	1 cut(s)	470
SfoI	GGCGCC	1 cut(s)	424
Sfr274I	CTCGAG	1 cut(s)	350
SlaI	CTCGAG	1 cut(s)	350
SmiMI	CAYNNNNRTG	1 cut(s)	999
SmlI	CTYRAG	1 cut(s)	350
SmoI	CTYRAG	1 cut(s)	350
Sse8387I	CCTGCAGG	1 cut(s)	474
Sse9I	AATT	6 cut(s)	11, 211, 236, 675, 816, 957
SspDI	GGCGCC	1 cut(s)	422
SspMI	CTAG	1 cut(s)	555
SstI	GAGCTC	1 cut(s)	950
StyD4I	CCNGG	6 cut(s)	15, 60, 336, 594, 714, 950
TaaI	ACNGT	1 cut(s)	131
TaqI	TCGA	8 cut(s)	90, 117, 332, 344, 351, 360, 380, 803
TaqII	GACCGA	1 cut(s)	518
TasI	AATT	6 cut(s)	11, 211, 236, 675, 816, 957
TauI	GCSGC	7 cut(s)	329, 395, 434, 582, 608, 734, 778
TfiI	GAWTC	2 cut(s)	824, 1105
TscAI	CASTG	1 cut(s)	1006
TseFI	GTSAC	1 cut(s)	80
TseI	GCWGC	3 cut(s)	198, 493, 571
Tsp45I	GTSAC	1 cut(s)	80
TspDTI	ATGAA	1 cut(s)	1089
TspGWI	ACGGA	1 cut(s)	428
TspRI	CASTG	1 cut(s)	1006
Tth111I	GACNNNGTC	1 cut(s)	415
XapI	RAATTY	1 cut(s)	957
XhoI	CTCGAG	1 cut(s)	350
XspI	CTAG	1 cut(s)	555

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