Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0012930

Physical Location & Seq

Genomic Coordinates Reverse (-)

3149020 .. 3150785

Gene Structure 1766 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG042400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1143 bp

ATGGCGACTCAATTCCCGGACGATTTCAAGTGCCCGATTTCGCTGGAAATAATGTCCGACCCGGTTATACTCCCTTCGGGTCACACCTTCGACCGGCCCAACATCCAACGCTGGCTCGACGCCGGCCACCGTACTTGCCCACTTACCAAACTACCCCTCCCCGAACACCCCTCCCTCATCCCCAACCATGCCCTCCGCAGCTTGATTTCCAATTATACCCTTCCCTCCCCTACACAATTACACAACACCCAGCAGCTCCCCAACCAGAACCAGAGCCAGAGCCAGCCCAACCAGCAACCCCAAACCCTAATCGCGACGCTGACTTCGGCGGCGTCGAGCCTGGACTCGAAGCTCGAGTCGCTCGACCAGCTCAACCGCCTGTCGAAGCGGGACGCGGCGTTTCGCGCCAAGCTGACGGAGTCCGGCGCCGTCGCCGCCGTGCTGAAGTGCGTGGACTCCGACGAGCCGAGCCTGCAGGAGAAGGCTCTGACTCTGCTGCTGAATGTGAGCTTGGACGACGACAACAAGGTGGGTCTGGTGGCGGAAGGAGCGATTGCTAGAGTCGTGGCGGTGCTGCAAGGCGGCTCGCCGAACAGCCGGGCCGTCGCGGCGACGATGTTGACCAGCTTGGCCGTCGTGGAGGTCAACAAGGCCACAATCGGGTCGTACCCGTATGCAATTCGGGCTCTTGTTTCGCTTCTCAGGGACGGCAACGGCCGGGAGAAGAAAGAGGCGGCGACGGCGCTTTATGCTATCTGTTCGTTTCCGGACAATCGGCGGCGGGCGGTGGAGTGCGGTGCGGTTTCGATTTTGATCCGAATTGCGGATTCGGGTTTGGAGCGGGCCGTTGAGGTTTTGGGCCTGTTGGCGAAAAGCAAGGATGGGAGAGAAGAGATGCAGAGGTTTAGTGGGTGTGTGAAGATTTTAGTGAGGGTTTTAGAGAACGGGAGCTCCAGGGGAATTCAGTATGCTCTGCTTACATTGAGTTCGCTTTGCCATTTCAGTGAGAAAATGTGTGTGGAAGCAAGAAAAGAAGGCGTCTTAGCGATTTGCGTGCGTTTGGTTGAAGATGATAATGAAAAGATTAGAAAAAATGCTTCTTATTTGATTCAGGTTCTGGATGGGAACCATTCCATGATTTGA

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

380

Amino Acids

41.33

Weight (kDa)

7.57

Isoelectric Point (pI)

46.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
U-box	PF04564	6 - 72	2.6e-20	U-box domain
zf-RING_UBOX	PF13445	11 - 47	2e-06	RING-type zinc-finger
ARM_PUB	PF25598	114 - 376	1.3e-24	Plant U-box protein ARM repeat region
ARM_ARMC5	PF24768	116 - 275	5.3e-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)
AccB1I	GGYRCC	1 cut(s)	425
AccBSI	CCGCTC	1 cut(s)	841
AccII	CGCG	4 cut(s)	314, 395, 405, 608
AccIII	TCCGGA	1 cut(s)	766
AclWI	GGATC	1 cut(s)	808
AcoI	YGGCCR	3 cut(s)	124, 630, 715
AcsI	RAATTY	1 cut(s)	960
AcuI	CTGAAG	1 cut(s)	464
AcyI	GRCGYC	4 cut(s)	120, 332, 426, 1038
AfaI	GTAC	2 cut(s)	133, 668
AfiI	CCNNNNNNNGG	3 cut(s)	93, 660, 823
AgsI	TTSAA	2 cut(s)	28, 1067
AjnI	CCWGG	2 cut(s)	339, 953
AjuI	GAANNNNNNNTTGG	2 cut(s)	494, 526
AloI	GAACNNNNNNTCC	2 cut(s)	935, 967
AluBI	AGCT	8 cut(s)	201, 256, 352, 370, 412, 510, 627, 951
AluI	AGCT	8 cut(s)	201, 256, 352, 370, 412, 510, 627, 951
Alw21I	GWGCWC	1 cut(s)	953
AlwI	GGATC	1 cut(s)	808
AlwNI	CAGNNNCTG	1 cut(s)	1117
Ama87I	CYCGRG	1 cut(s)	353
Aor13HI	TCCGGA	1 cut(s)	766
AoxI	GGCC	8 cut(s)	95, 124, 600, 630, 651, 715, 843, 859
ApeKI	GCWGC	4 cut(s)	198, 253, 496, 574
ApoI	RAATTY	1 cut(s)	960
ArsI	GACNNNNNNTTYG	4 cut(s)	307, 339, 341, 373
AspLEI	GCGC	3 cut(s)	407, 428, 745
AspS9I	GGNCC	4 cut(s)	96, 600, 843, 859
AsuC2I	CCSGG	4 cut(s)	17, 62, 599, 719
AvaI	CYCGRG	1 cut(s)	353
BaeGI	GKGCMC	1 cut(s)	35
BanI	GGYRCC	1 cut(s)	425
BanII	GRGCYC	2 cut(s)	688, 953
Bbv12I	GWGCWC	1 cut(s)	953
BbvI	GCAGC	4 cut(s)	210, 265, 483, 561
BccI	CCATC	2 cut(s)	875, 1115
BceAI	ACGGC	8 cut(s)	413, 422, 587, 617, 724, 730, 756, 830
BcgI	CGANNNNNNTGC	2 cut(s)	1036, 1070
BciT130I	CCWGG	2 cut(s)	341, 955
BcnI	CCSGG	4 cut(s)	17, 62, 599, 719
BfaI	CTAG	1 cut(s)	558
BfmI	CTRYAG	1 cut(s)	473
BfoI	RGCGCY	2 cut(s)	429, 746
BglI	GCCNNNNNGGC	1 cut(s)	608
Bme1390I	CCNGG	6 cut(s)	17, 62, 341, 599, 719, 955
BmeT110I	CYCGRG	1 cut(s)	353
BmgT120I	GGNCC	4 cut(s)	96, 600, 843, 859
BmiI	GGNNCC	2 cut(s)	427, 1127
BmrFI	CCNGG	6 cut(s)	17, 62, 341, 599, 719, 955
BmsI	GCATC	1 cut(s)	885
BpmI	CTGGAG	1 cut(s)	937
BpuMI	CCSGG	4 cut(s)	17, 62, 599, 719
BsaBI	GATNNNNATC	1 cut(s)	812
BsaHI	GRCGYC	4 cut(s)	120, 332, 426, 1038
BsaJI	CCNNGG	1 cut(s)	954
BsaWI	WCCGGW	1 cut(s)	766
BsaXI	ACNNNNNCTCC	4 cut(s)	141, 171, 935, 965
Bsc4I	CCNNNNNNNGG	3 cut(s)	93, 660, 823
Bse118I	RCCGGY	2 cut(s)	93, 122
Bse8I	GATNNNNATC	1 cut(s)	812
BseAI	TCCGGA	1 cut(s)	766
BseBI	CCWGG	2 cut(s)	341, 955
BseDI	CCNNGG	1 cut(s)	954
BseGI	GGATG	4 cut(s)	102, 177, 886, 1126
BseJI	GATNNNNATC	1 cut(s)	812
BseLI	CCNNNNNNNGG	3 cut(s)	93, 660, 823
BseMII	CTCAG	1 cut(s)	715
BseSI	GKGCMC	1 cut(s)	35
BseX3I	CGGCCG	1 cut(s)	715
BseXI	GCAGC	4 cut(s)	210, 265, 483, 561
BseYI	CCCAGC	1 cut(s)	249
Bsh1236I	CGCG	4 cut(s)	314, 395, 405, 608
Bsh1285I	CGRYCG	2 cut(s)	94, 718
BshFI	GGCC	8 cut(s)	97, 126, 602, 632, 653, 717, 845, 861
BshNI	GGYRCC	1 cut(s)	425
BsiEI	CGRYCG	2 cut(s)	94, 718
BsiHKAI	GWGCWC	1 cut(s)	953
BsiHKCI	CYCGRG	1 cut(s)	353
BsiSI	CCGG	8 cut(s)	17, 62, 94, 123, 423, 598, 718, 767
BslFI	GGGAC	2 cut(s)	404, 719
BslI	CCNNNNNNNGG	3 cut(s)	93, 660, 823
BsmFI	GGGAC	2 cut(s)	404, 719
BsnI	GGCC	8 cut(s)	97, 126, 602, 632, 653, 717, 845, 861
BsoBI	CYCGRG	1 cut(s)	353
Bsp1286I	GDGCHC	3 cut(s)	35, 688, 953
Bsp13I	TCCGGA	1 cut(s)	766
Bsp143I	GATC	1 cut(s)	813
Bsp68I	TCGCGA	1 cut(s)	314
BspANI	GGCC	8 cut(s)	97, 126, 602, 632, 653, 717, 845, 861
BspCNI	CTCAG	1 cut(s)	714
BspEI	TCCGGA	1 cut(s)	766
BspFNI	CGCG	4 cut(s)	314, 395, 405, 608
BspLI	GGNNCC	2 cut(s)	427, 1127
BspMAI	CTGCAG	1 cut(s)	477
BspPI	GGATC	1 cut(s)	808
BspT107I	GGYRCC	1 cut(s)	425
BsrBI	CCGCTC	1 cut(s)	841
BsrFI	RCCGGY	2 cut(s)	93, 122
BssAI	RCCGGY	2 cut(s)	93, 122
BssECI	CCNNGG	1 cut(s)	954
BssMI	GATC	1 cut(s)	813
BssNI	GRCGYC	4 cut(s)	120, 332, 426, 1038
Bst2UI	CCWGG	2 cut(s)	341, 955
Bst4CI	ACNGT	1 cut(s)	131
Bst6I	CTCTTC	1 cut(s)	885
BstACI	GRCGYC	4 cut(s)	120, 332, 426, 1038
BstC8I	GCNNGC	8 cut(s)	113, 124, 284, 473, 587, 783, 843, 1055
BstDEI	CTNAG	2 cut(s)	701, 1042
BstF5I	GGATG	4 cut(s)	102, 177, 886, 1126
BstFNI	CGCG	4 cut(s)	314, 395, 405, 608
BstH2I	RGCGCY	2 cut(s)	429, 746
BstHHI	GCGC	3 cut(s)	407, 428, 745
BstKTI	GATC	1 cut(s)	816
BstMBI	GATC	1 cut(s)	813
BstMCI	CGRYCG	2 cut(s)	94, 718
BstNI	CCWGG	2 cut(s)	341, 955
BstSCI	CCNGG	6 cut(s)	15, 60, 339, 597, 717, 953
BstSFI	CTRYAG	1 cut(s)	473
BstSLI	GKGCMC	1 cut(s)	35
BstUI	CGCG	4 cut(s)	314, 395, 405, 608
BstV1I	GCAGC	4 cut(s)	210, 265, 483, 561
BstZI	CGGCCG	1 cut(s)	715
BsuRI	GGCC	8 cut(s)	97, 126, 602, 632, 653, 717, 845, 861
BtsCI	GGATG	4 cut(s)	102, 177, 886, 1126
BtsIMutI	CAGTG	1 cut(s)	1009
BtuMI	TCGCGA	1 cut(s)	314
Cac8I	GCNNGC	8 cut(s)	113, 124, 284, 473, 587, 783, 843, 1055
CaiI	CAGNNNCTG	1 cut(s)	1117
CfoI	GCGC	3 cut(s)	407, 428, 745
Cfr10I	RCCGGY	2 cut(s)	93, 122
Cfr13I	GGNCC	4 cut(s)	96, 600, 843, 859
CseI	GACGC	5 cut(s)	128, 321, 325, 401, 1027
Csp6I	GTAC	2 cut(s)	132, 667
CspCI	CAANNNNNGTGG	2 cut(s)	116, 151
CviAII	CATG	2 cut(s)	188, 1135
CviQI	GTAC	2 cut(s)	132, 667
DdeI	CTNAG	2 cut(s)	701, 1042
DinI	GGCGCC	1 cut(s)	427
DpnI	GATC	1 cut(s)	815
DpnII	GATC	1 cut(s)	813
EaeI	YGGCCR	3 cut(s)	124, 630, 715
EagI	CGGCCG	1 cut(s)	715
Eam1104I	CTCTTC	1 cut(s)	885
EarI	CTCTTC	1 cut(s)	885
EciI	GGCGGA	1 cut(s)	557
Ecl136II	GAGCTC	1 cut(s)	951
EclXI	CGGCCG	1 cut(s)	715
Eco24I	GRGCYC	2 cut(s)	688, 953
Eco52I	CGGCCG	1 cut(s)	715
Eco53kI	GAGCTC	1 cut(s)	951
Eco57I	CTGAAG	1 cut(s)	464
Eco88I	CYCGRG	1 cut(s)	353
EcoICRI	GAGCTC	1 cut(s)	951
EcoRI	GAATTC	1 cut(s)	960
EcoRII	CCWGG	2 cut(s)	339, 953
EcoT38I	GRGCYC	2 cut(s)	688, 953
EgeI	GGCGCC	1 cut(s)	427
EheI	GGCGCC	1 cut(s)	427
FaeI	CATG	2 cut(s)	191, 1138
FaiI	YATR	7 cut(s)	68, 189, 216, 675, 750, 969, 1136
FaqI	GGGAC	2 cut(s)	404, 719
FatI	CATG	2 cut(s)	187, 1134
FauI	CCCGC	3 cut(s)	381, 774, 834
FokI	GGATG	4 cut(s)	89, 164, 893, 1133
FriOI	GRGCYC	2 cut(s)	688, 953
FspBI	CTAG	1 cut(s)	558
GlaI	GCGC	3 cut(s)	406, 427, 744
GsaI	CCCAGC	1 cut(s)	253
GsuI	CTGGAG	1 cut(s)	937
HaeII	RGCGCY	2 cut(s)	429, 746
HaeIII	GGCC	8 cut(s)	97, 126, 602, 632, 653, 717, 845, 861
HapII	CCGG	8 cut(s)	17, 62, 94, 123, 423, 598, 718, 767
HgaI	GACGC	5 cut(s)	128, 321, 325, 401, 1027
HhaI	GCGC	3 cut(s)	407, 428, 745
Hin1I	GRCGYC	4 cut(s)	120, 332, 426, 1038
Hin1II	CATG	2 cut(s)	191, 1138
Hin6I	GCGC	3 cut(s)	405, 426, 743
HinP1I	GCGC	3 cut(s)	405, 426, 743
HincII	GTYRAC	2 cut(s)	621, 646
HindII	GTYRAC	2 cut(s)	621, 646
HinfI	GANTC	9 cut(s)	7, 344, 356, 419, 455, 490, 561, 827, 1108
HpaII	CCGG	8 cut(s)	17, 62, 94, 123, 423, 598, 718, 767
Hpy166II	GTNNAC	3 cut(s)	454, 621, 646
Hpy188I	TCNGA	4 cut(s)	58, 460, 489, 818
Hpy188III	TCNNGA	3 cut(s)	313, 767, 1118
Hpy8I	GTNNAC	3 cut(s)	454, 621, 646
HpyAV	CCTTC	6 cut(s)	84, 97, 230, 475, 539, 1028
HpyCH4III	ACNGT	1 cut(s)	131
HpyCH4V	TGCA	4 cut(s)	475, 577, 677, 898
HpyF3I	CTNAG	2 cut(s)	701, 1042
Hsp92I	GRCGYC	4 cut(s)	120, 332, 426, 1038
Hsp92II	CATG	2 cut(s)	191, 1138
HspAI	GCGC	3 cut(s)	405, 426, 743
KasI	GGCGCC	1 cut(s)	425
Kpn2I	TCCGGA	1 cut(s)	766
KroI	GCCGGC	1 cut(s)	122
KroNI	GCCGGC	1 cut(s)	124
Kzo9I	GATC	1 cut(s)	813
LmnI	GCTCC	5 cut(s)	261, 548, 838, 948, 956
Lsp1109I	GCAGC	4 cut(s)	210, 265, 483, 561
LweI	GCATC	1 cut(s)	885
MaeI	CTAG	1 cut(s)	558
MaeIII	GTNAC	1 cut(s)	80
MalI	GATC	1 cut(s)	815
MbiI	CCGCTC	1 cut(s)	841
MboI	GATC	1 cut(s)	813
MboII	GAAGA	4 cut(s)	736, 902, 931, 1079
MhlI	GDGCHC	3 cut(s)	35, 688, 953
MluCI	AATT	6 cut(s)	11, 211, 236, 678, 819, 960
Mly113I	GGCGCC	1 cut(s)	426
MlyI	GAGTC	6 cut(s)	338, 365, 428, 449, 484, 570
MmeI	TCCRAC	3 cut(s)	81, 130, 483
MroI	TCCGGA	1 cut(s)	766
MroNI	GCCGGC	1 cut(s)	122
MslI	CAYNNNNRTG	1 cut(s)	1002
MspI	CCGG	8 cut(s)	17, 62, 94, 123, 423, 598, 718, 767
MspR9I	CCNGG	6 cut(s)	17, 62, 341, 599, 719, 955
MvaI	CCWGG	2 cut(s)	341, 955
MvnI	CGCG	4 cut(s)	314, 395, 405, 608
NaeI	GCCGGC	1 cut(s)	124
NarI	GGCGCC	1 cut(s)	426
NciI	CCSGG	4 cut(s)	17, 62, 599, 719
NdeII	GATC	1 cut(s)	813
NgoMIV	GCCGGC	1 cut(s)	122
NlaIII	CATG	2 cut(s)	191, 1138
NlaIV	GGNNCC	2 cut(s)	427, 1127
NmeAIII	GCCGAG	1 cut(s)	492
NmuCI	GTSAC	1 cut(s)	80
NruI	TCGCGA	1 cut(s)	314
PaeR7I	CTCGAG	1 cut(s)	353
PcsI	WCGNNNNNNNCGW	2 cut(s)	332, 360
PdiI	GCCGGC	1 cut(s)	124
PfeI	GAWTC	2 cut(s)	827, 1108
PflFI	GACNNNGTC	1 cut(s)	418
PfoI	TCCNGGA	1 cut(s)	15
PleI	GAGTC	6 cut(s)	338, 364, 427, 449, 484, 569
PluTI	GGCGCC	1 cut(s)	429
PpsI	GAGTC	6 cut(s)	338, 364, 427, 449, 484, 569
Psp124BI	GAGCTC	1 cut(s)	953
Psp6I	CCWGG	2 cut(s)	339, 953
PspFI	CCCAGC	1 cut(s)	249
PspGI	CCWGG	2 cut(s)	339, 953
PspN4I	GGNNCC	2 cut(s)	427, 1127
PspPI	GGNCC	4 cut(s)	96, 600, 843, 859
PspXI	VCTCGAGB	1 cut(s)	353
PstI	CTGCAG	1 cut(s)	477
PstNI	CAGNNNCTG	1 cut(s)	1117
PsyI	GACNNNGTC	1 cut(s)	418
RruI	TCGCGA	1 cut(s)	314
RsaI	GTAC	2 cut(s)	133, 668
RsaNI	GTAC	2 cut(s)	132, 667
RseI	CAYNNNNRTG	1 cut(s)	1002
SacI	GAGCTC	1 cut(s)	953
Sau3AI	GATC	1 cut(s)	813
Sau96I	GGNCC	4 cut(s)	96, 600, 843, 859
SbfI	CCTGCAGG	1 cut(s)	477
SchI	GAGTC	6 cut(s)	338, 365, 428, 449, 484, 570
ScrFI	CCNGG	6 cut(s)	17, 62, 341, 599, 719, 955
SdaI	CCTGCAGG	1 cut(s)	477
SduI	GDGCHC	3 cut(s)	35, 688, 953
SfaNI	GCATC	1 cut(s)	885
SfcI	CTRYAG	1 cut(s)	473
SfoI	GGCGCC	1 cut(s)	427
Sfr274I	CTCGAG	1 cut(s)	353
SlaI	CTCGAG	1 cut(s)	353
SmiMI	CAYNNNNRTG	1 cut(s)	1002
SmlI	CTYRAG	1 cut(s)	353
SmoI	CTYRAG	1 cut(s)	353
Sse8387I	CCTGCAGG	1 cut(s)	477
Sse9I	AATT	6 cut(s)	11, 211, 236, 678, 819, 960
SspDI	GGCGCC	1 cut(s)	425
SspMI	CTAG	1 cut(s)	558
SstI	GAGCTC	1 cut(s)	953
StyD4I	CCNGG	6 cut(s)	15, 60, 339, 597, 717, 953
TaaI	ACNGT	1 cut(s)	131
TaqI	TCGA	8 cut(s)	90, 117, 335, 347, 354, 363, 383, 806
TasI	AATT	6 cut(s)	11, 211, 236, 678, 819, 960
TauI	GCSGC	7 cut(s)	332, 398, 437, 585, 611, 737, 781
TfiI	GAWTC	2 cut(s)	827, 1108
TscAI	CASTG	1 cut(s)	1009
TseFI	GTSAC	1 cut(s)	80
TseI	GCWGC	4 cut(s)	198, 253, 496, 574
Tsp45I	GTSAC	1 cut(s)	80
TspDTI	ATGAA	1 cut(s)	1092
TspGWI	ACGGA	1 cut(s)	431
TspRI	CASTG	1 cut(s)	1009
Tth111I	GACNNNGTC	1 cut(s)	418
XapI	RAATTY	1 cut(s)	960
XhoI	CTCGAG	1 cut(s)	353
XspI	CTAG	1 cut(s)	558

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