Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0017672

Physical Location & Seq

Genomic Coordinates Forward (+)

39323328 .. 39324349

Gene Structure 1022 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00246260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 915 bp

ATGGCTTCTTTAAACATAGATCTGAATTGGATACGTCAACGGATGATGGAGATTGATATGGAGCATCGGCCGTCTCTCGATCTAAGCTATCGCTGCTATTCTGCAACTTTCTTGGACAAAAACCAAGCTGCAAAACTCGAAACCGGTGACAAAATCTTTATGCCACCCTCAGCCCTCAGAGTCCTTTTACACCATTTATATGCCTTCCTGGAAGATGAAGAGCCTGGACTTGGAAGAGGAGACCTTGTTCAAGTCAAGAATGTGACTCTTCCAAAAGGCAAATTCGTTAAATTGCAACCCCACACCAAAAACTTCTTGGACATTGCAGATCCGAGAGCTGTGTTGGAGACAACACTGAGGAGTTTTACATGTTTCACAACTGGTGATACTATTAAGCTGCCTTATAATGGCAAGGAGTACTATGTGGATATCGTAGAAACAAAGCCTGGTAAGGCCATAAGTATCGTTGACACAGACTGTGAGGTTGACTTTGCGCCTCCTCGCGACTATCAGGAACCCGAGATGCCTGTTGCTGCAGCTTCTTCTCTGACAAACAAGGCGGCATTGGTGGCAGCTGATCAGATTGAAGAACCTAAATTCAACCCTTTTACCGGAGCTGGAAGGCGTTTGGATGGAAAACCTTTGTCCGCTCCCCCAGTTTCTTCTTCCTCATTAGTTGCAGCAGCCAATAATGGTAAGGGAAATGCACAGCCATCGAATACAGGATCCAGCTCGCAAGGGACCAGTCGTCGGGCTCAGGGGAAGCTTGTTTTCGGATCAAATGCTGCCAACCCTACTACTACTACTCCAAAGGAAACAGAAAAGGAAGCTTCAAAAGAGCAGGCTAAGCCAGAAAAGAAAGAAGATCCAAAGTTCCAGTCCTTTACAGGGAAAAGGTACTCATTAAAGGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001817 GO:0001818 GO:0002682 GO:0002683 GO:0002697 GO:0002698 GO:0002831 GO:0002832 GO:0003674 GO:0005102 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009966 GO:0009968 GO:0009987 GO:0010646 GO:0010648 GO:0012505 GO:0016020 GO:0019538 GO:0019899 GO:0019941 GO:0023051 GO:0023057 GO:0030163 GO:0031347 GO:0031348 GO:0031984 GO:0032101 GO:0032102 GO:0032479 GO:0032480 GO:0032991 GO:0034098 GO:0036501 GO:0039531 GO:0039532 GO:0039535 GO:0039536 GO:0042175 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043900 GO:0043901 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0044877 GO:0045088 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050687 GO:0050688 GO:0050776 GO:0050789 GO:0050794 GO:0051117 GO:0051239 GO:0051241 GO:0051603 GO:0065007 GO:0071704 GO:0080134 GO:0098796 GO:0098827 GO:1901564 GO:1901565 GO:1901575 GO:1902531 GO:1902532

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

UFD1

Protein Analysis

304

Amino Acids

33.34

Weight (kDa)

8.26

Isoelectric Point (pI)

35.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	29 - 64	4.1e-06	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	92 - 167	8.8e-34	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 2

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: OG0017672)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g23750 FvH4_5g23750
rosa_chinensis	RchiOBHm_Chr7g0213071
rosa_laevigata	RLG00000002833
rosa_multiflora	Rmu_co8462811.1_g000001 Rmu_sc0001121.1_g000007
rosa_roxburghii	Rroxscaffold_3G00246260
rosa_rugosa	Rorug07G0139300
rosa_samantha	Rh7AG270600 Rh7CG289900 Rh7DG278800
rosa_wichuraiana	Rw7G023510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	405
AccBSI	CCGCTC	1 cut(s)	650
AccII	CGCG	1 cut(s)	504
AciI	CCGC	2 cut(s)	560, 648
AclWI	GGATC	5 cut(s)	323, 720, 733, 784, 860
AcoI	YGGCCR	1 cut(s)	68
AcsI	RAATTY	2 cut(s)	281, 596
AfaI	GTAC	2 cut(s)	419, 899
AfiI	CCNNNNNNNGG	5 cut(s)	230, 407, 611, 750, 888
AflIII	ACRYGT	1 cut(s)	368
AgeI	ACCGGT	1 cut(s)	143
AgsI	TTSAA	4 cut(s)	251, 587, 601, 834
AhdI	GACNNNNNGTC	1 cut(s)	747
AjnI	CCWGG	3 cut(s)	207, 223, 445
AloI	GAACNNNNNNTCC	2 cut(s)	231, 263
Alw26I	GTCTC	3 cut(s)	78, 234, 341
AlwI	GGATC	5 cut(s)	323, 720, 733, 784, 860
Ama87I	CYCGRG	1 cut(s)	518
AoxI	GGCC	2 cut(s)	68, 453
ApeKI	GCWGC	9 cut(s)	93, 128, 397, 533, 536, 572, 680, 683, 785
ApoI	RAATTY	2 cut(s)	281, 596
ArsI	GACNNNNNNTTYG	2 cut(s)	863, 895
AsiGI	ACCGGT	1 cut(s)	143
AspLEI	GCGC	1 cut(s)	496
AspS9I	GGNCC	1 cut(s)	741
AsuHPI	GGTGA	2 cut(s)	158, 395
AvaI	CYCGRG	1 cut(s)	518
AvaII	GGWCC	1 cut(s)	741
BamHI	GGATCC	1 cut(s)	725
BanII	GRGCYC	1 cut(s)	757
BbvCI	CCTCAGC	1 cut(s)	169
BbvI	GCAGC	9 cut(s)	80, 115, 384, 520, 548, 584, 692, 695, 772
BccI	CCATC	3 cut(s)	40, 626, 721
BceAI	ACGGC	1 cut(s)	55
BcgI	CGANNNNNNTGC	2 cut(s)	696, 730
BciT130I	CCWGG	3 cut(s)	209, 225, 447
BciVI	GTATCC	1 cut(s)	24
BclI	TGATCA	1 cut(s)	577
BcoDI	GTCTC	3 cut(s)	78, 234, 341
BfmI	CTRYAG	1 cut(s)	534
BfuI	GTATCC	1 cut(s)	24
BglII	AGATCT	1 cut(s)	19
BlpI	GCTNAGC	1 cut(s)	846
BmcAI	AGTACT	1 cut(s)	419
Bme1390I	CCNGG	3 cut(s)	209, 225, 447
Bme18I	GGWCC	1 cut(s)	741
BmeRI	GACNNNNNGTC	1 cut(s)	747
BmeT110I	CYCGRG	1 cut(s)	518
BmgT120I	GGNCC	1 cut(s)	741
BmiI	GGNNCC	3 cut(s)	516, 727, 742
BmrFI	CCNGG	3 cut(s)	209, 225, 447
BmrI	ACTGGG	1 cut(s)	650
BmsI	GCATC	2 cut(s)	73, 513
BmuI	ACTGGG	1 cut(s)	650
Bpu10I	CCTNAGC	2 cut(s)	169, 756
Bpu1102I	GCTNAGC	1 cut(s)	846
BsaI	GGTCTC	1 cut(s)	234
BsaWI	WCCGGW	2 cut(s)	143, 611
BsaXI	ACNNNNNCTCC	4 cut(s)	231, 261, 790, 820
Bsc4I	CCNNNNNNNGG	5 cut(s)	230, 407, 611, 750, 888
Bse118I	RCCGGY	1 cut(s)	143
Bse1I	ACTGG	4 cut(s)	385, 656, 744, 877
Bse3DI	GCAATG	1 cut(s)	321
BseBI	CCWGG	3 cut(s)	209, 225, 447
BseGI	GGATG	2 cut(s)	48, 637
BseLI	CCNNNNNNNGG	5 cut(s)	230, 407, 611, 750, 888
BseMI	GCAATG	1 cut(s)	321
BseMII	CTCAG	4 cut(s)	183, 190, 347, 770
BseNI	ACTGG	4 cut(s)	385, 656, 744, 877
BseRI	GAGGAG	3 cut(s)	252, 373, 489
BseX3I	CGGCCG	1 cut(s)	68
BseXI	GCAGC	9 cut(s)	80, 115, 384, 520, 548, 584, 692, 695, 772
Bsh1236I	CGCG	1 cut(s)	504
Bsh1285I	CGRYCG	1 cut(s)	71
BshFI	GGCC	2 cut(s)	70, 455
BshTI	ACCGGT	1 cut(s)	143
BsiEI	CGRYCG	1 cut(s)	71
BsiHKCI	CYCGRG	1 cut(s)	518
BsiSI	CCGG	2 cut(s)	144, 612
BslFI	GGGAC	1 cut(s)	754
BslI	CCNNNNNNNGG	5 cut(s)	230, 407, 611, 750, 888
BsmAI	GTCTC	3 cut(s)	78, 234, 341
BsmBI	CGTCTC	1 cut(s)	78
BsmFI	GGGAC	1 cut(s)	754
BsnI	GGCC	2 cut(s)	70, 455
Bso31I	GGTCTC	1 cut(s)	234
BsoBI	CYCGRG	1 cut(s)	518
Bsp1286I	GDGCHC	1 cut(s)	757
Bsp143I	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
Bsp1720I	GCTNAGC	1 cut(s)	846
Bsp68I	TCGCGA	1 cut(s)	504
BspACI	CCGC	2 cut(s)	560, 648
BspANI	GGCC	2 cut(s)	70, 455
BspCNI	CTCAG	4 cut(s)	182, 189, 348, 769
BspFNI	CGCG	1 cut(s)	504
BspLI	GGNNCC	3 cut(s)	516, 727, 742
BspMAI	CTGCAG	1 cut(s)	538
BspPI	GGATC	5 cut(s)	323, 720, 733, 784, 860
BspQI	GCTCTTC	1 cut(s)	213
BspTNI	GGTCTC	1 cut(s)	234
BsrBI	CCGCTC	1 cut(s)	650
BsrDI	GCAATG	1 cut(s)	321
BsrFI	RCCGGY	1 cut(s)	143
BsrI	ACTGG	4 cut(s)	385, 656, 744, 877
BssAI	RCCGGY	1 cut(s)	143
BssMI	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
Bst2UI	CCWGG	3 cut(s)	209, 225, 447
Bst4CI	ACNGT	1 cut(s)	479
Bst6I	CTCTTC	3 cut(s)	213, 229, 273
BstC8I	GCNNGC	2 cut(s)	734, 843
BstDEI	CTNAG	6 cut(s)	83, 169, 176, 356, 756, 846
BstF5I	GGATG	2 cut(s)	48, 637
BstFNI	CGCG	1 cut(s)	504
BstHHI	GCGC	1 cut(s)	496
BstKTI	GATC	7 cut(s)	22, 82, 331, 580, 728, 779, 868
BstMAI	GTCTC	3 cut(s)	78, 234, 341
BstMBI	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
BstMCI	CGRYCG	1 cut(s)	71
BstMWI	GCNNNNNNNGC	3 cut(s)	93, 569, 847
BstNI	CCWGG	3 cut(s)	209, 225, 447
BstNSI	RCATGY	1 cut(s)	372
BstSCI	CCNGG	3 cut(s)	207, 223, 445
BstSFI	CTRYAG	1 cut(s)	534
BstUI	CGCG	1 cut(s)	504
BstV1I	GCAGC	9 cut(s)	80, 115, 384, 520, 548, 584, 692, 695, 772
BstX2I	RGATCY	4 cut(s)	19, 328, 725, 865
BstYI	RGATCY	4 cut(s)	19, 328, 725, 865
BstZI	CGGCCG	1 cut(s)	68
BsuI	GTATCC	1 cut(s)	24
BsuRI	GGCC	2 cut(s)	70, 455
BtsCI	GGATG	2 cut(s)	48, 637
BtsIMutI	CAGTG	1 cut(s)	353
BtuMI	TCGCGA	1 cut(s)	504
Cac8I	GCNNGC	2 cut(s)	734, 843
CfoI	GCGC	1 cut(s)	496
Cfr10I	RCCGGY	1 cut(s)	143
Cfr13I	GGNCC	1 cut(s)	741
Csp6I	GTAC	2 cut(s)	418, 898
CspAI	ACCGGT	1 cut(s)	143
CviAII	CATG	1 cut(s)	369
CviQI	GTAC	2 cut(s)	418, 898
DdeI	CTNAG	6 cut(s)	83, 169, 176, 356, 756, 846
DpnI	GATC	7 cut(s)	21, 81, 330, 579, 727, 778, 867
DpnII	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
DraI	TTTAAA	1 cut(s)	12
DriI	GACNNNNNGTC	1 cut(s)	747
EaeI	YGGCCR	1 cut(s)	68
EagI	CGGCCG	1 cut(s)	68
Eam1104I	CTCTTC	3 cut(s)	213, 229, 273
Eam1105I	GACNNNNNGTC	1 cut(s)	747
EarI	CTCTTC	3 cut(s)	213, 229, 273
EclXI	CGGCCG	1 cut(s)	68
Eco24I	GRGCYC	1 cut(s)	757
Eco31I	GGTCTC	1 cut(s)	234
Eco32I	GATATC	1 cut(s)	430
Eco47I	GGWCC	1 cut(s)	741
Eco52I	CGGCCG	1 cut(s)	68
Eco88I	CYCGRG	1 cut(s)	518
EcoRII	CCWGG	3 cut(s)	207, 223, 445
EcoRV	GATATC	1 cut(s)	430
EcoT38I	GRGCYC	1 cut(s)	757
Esp3I	CGTCTC	1 cut(s)	78
FaeI	CATG	1 cut(s)	372
FaiI	YATR	9 cut(s)	17, 59, 161, 199, 201, 370, 405, 423, 458
FaqI	GGGAC	1 cut(s)	754
FatI	CATG	1 cut(s)	368
FbaI	TGATCA	1 cut(s)	577
FokI	GGATG	2 cut(s)	55, 644
FriOI	GRGCYC	1 cut(s)	757
GlaI	GCGC	1 cut(s)	495
HaeIII	GGCC	2 cut(s)	70, 455
HapII	CCGG	2 cut(s)	144, 612
HhaI	GCGC	1 cut(s)	496
Hin1II	CATG	1 cut(s)	372
Hin6I	GCGC	1 cut(s)	494
HinP1I	GCGC	1 cut(s)	494
HincII	GTYRAC	3 cut(s)	38, 469, 487
HindII	GTYRAC	3 cut(s)	38, 469, 487
HindIII	AAGCTT	2 cut(s)	764, 828
HinfI	GANTC	2 cut(s)	180, 265
HpaII	CCGG	2 cut(s)	144, 612
HphI	GGTGA	2 cut(s)	158, 395
Hpy166II	GTNNAC	3 cut(s)	38, 469, 487
Hpy188I	TCNGA	6 cut(s)	24, 179, 333, 549, 582, 776
Hpy188III	TCNNGA	4 cut(s)	77, 256, 503, 512
Hpy8I	GTNNAC	3 cut(s)	38, 469, 487
Hpy99I	CGWCG	1 cut(s)	753
HpyAV	CCTTC	2 cut(s)	214, 615
HpyCH4III	ACNGT	1 cut(s)	479
HpyCH4IV	ACGT	1 cut(s)	34
HpyCH4V	TGCA	7 cut(s)	104, 131, 295, 326, 536, 680, 707
HpyF10VI	GCNNNNNNNGC	3 cut(s)	93, 569, 847
HpyF3I	CTNAG	6 cut(s)	83, 169, 176, 356, 756, 846
HpySE526I	ACGT	1 cut(s)	34
Hsp92II	CATG	1 cut(s)	372
HspAI	GCGC	1 cut(s)	494
Ksp22I	TGATCA	1 cut(s)	577
Kzo9I	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
LguI	GCTCTTC	1 cut(s)	213
LmnI	GCTCC	3 cut(s)	61, 614, 655
Lsp1109I	GCAGC	9 cut(s)	80, 115, 384, 520, 548, 584, 692, 695, 772
LweI	GCATC	2 cut(s)	73, 513
MaeII	ACGT	1 cut(s)	34
MaeIII	GTNAC	2 cut(s)	146, 262
MalI	GATC	7 cut(s)	21, 81, 330, 579, 727, 778, 867
MbiI	CCGCTC	1 cut(s)	650
MboI	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
MboII	GAAGA	9 cut(s)	224, 230, 246, 260, 534, 599, 654, 657, 875
MflI	RGATCY	4 cut(s)	19, 328, 725, 865
MhlI	GDGCHC	1 cut(s)	757
MluCI	AATT	4 cut(s)	25, 281, 290, 596
MlyI	GAGTC	2 cut(s)	189, 259
MmeI	TCCRAC	1 cut(s)	324
MnlI	CCTC	8 cut(s)	178, 185, 230, 351, 475, 507, 510, 679
MseI	TTAA	4 cut(s)	11, 288, 393, 905
MslI	CAYNNNNRTG	1 cut(s)	198
MspA1I	CMGCKG	1 cut(s)	575
MspI	CCGG	2 cut(s)	144, 612
MspR9I	CCNGG	3 cut(s)	209, 225, 447
MvaI	CCWGG	3 cut(s)	209, 225, 447
MvnI	CGCG	1 cut(s)	504
MwoI	GCNNNNNNNGC	3 cut(s)	93, 569, 847
NdeII	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
NlaIII	CATG	1 cut(s)	372
NlaIV	GGNNCC	3 cut(s)	516, 727, 742
NmuCI	GTSAC	2 cut(s)	146, 262
NruI	TCGCGA	1 cut(s)	504
NspI	RCATGY	1 cut(s)	372
PciI	ACATGT	1 cut(s)	368
PciSI	GCTCTTC	1 cut(s)	213
PfoI	TCCNGGA	1 cut(s)	207
PinAI	ACCGGT	1 cut(s)	143
PleI	GAGTC	2 cut(s)	188, 259
PpsI	GAGTC	2 cut(s)	188, 259
PscI	ACATGT	1 cut(s)	368
PsiI	TTATAA	1 cut(s)	405
Psp6I	CCWGG	3 cut(s)	207, 223, 445
PspGI	CCWGG	3 cut(s)	207, 223, 445
PspN4I	GGNNCC	3 cut(s)	516, 727, 742
PspPI	GGNCC	1 cut(s)	741
PstI	CTGCAG	1 cut(s)	538
PsuI	RGATCY	4 cut(s)	19, 328, 725, 865
PvuII	CAGCTG	1 cut(s)	575
RruI	TCGCGA	1 cut(s)	504
RsaI	GTAC	2 cut(s)	419, 899
RsaNI	GTAC	2 cut(s)	418, 898
RseI	CAYNNNNRTG	1 cut(s)	198
SapI	GCTCTTC	1 cut(s)	213
SaqAI	TTAA	4 cut(s)	11, 288, 393, 905
Sau3AI	GATC	7 cut(s)	19, 79, 328, 577, 725, 776, 865
Sau96I	GGNCC	1 cut(s)	741
ScaI	AGTACT	1 cut(s)	419
SchI	GAGTC	2 cut(s)	189, 259
ScrFI	CCNGG	3 cut(s)	209, 225, 447
SduI	GDGCHC	1 cut(s)	757
SfaNI	GCATC	2 cut(s)	73, 513
SfcI	CTRYAG	1 cut(s)	534
SinI	GGWCC	1 cut(s)	741
SmiMI	CAYNNNNRTG	1 cut(s)	198
Sse9I	AATT	4 cut(s)	25, 281, 290, 596
SsiI	CCGC	2 cut(s)	560, 648
StyD4I	CCNGG	3 cut(s)	207, 223, 445
TaaI	ACNGT	1 cut(s)	479
TaiI	ACGT	1 cut(s)	37
TaqI	TCGA	3 cut(s)	78, 138, 716
TasI	AATT	4 cut(s)	25, 281, 290, 596
TatI	WGTACW	1 cut(s)	417
TauI	GCSGC	1 cut(s)	563
Tru1I	TTAA	4 cut(s)	11, 288, 393, 905
Tru9I	TTAA	4 cut(s)	11, 288, 393, 905
TscAI	CASTG	1 cut(s)	360
TseFI	GTSAC	2 cut(s)	146, 262
TseI	GCWGC	9 cut(s)	93, 128, 397, 533, 536, 572, 680, 683, 785
Tsp45I	GTSAC	2 cut(s)	146, 262
TspDTI	ATGAA	1 cut(s)	231
TspGWI	ACGGA	1 cut(s)	55
TspRI	CASTG	1 cut(s)	360
VpaK11BI	GGWCC	1 cut(s)	741
XapI	RAATTY	2 cut(s)	281, 596
XceI	RCATGY	1 cut(s)	372
XcmI	CCANNNNNNNNNTGG	1 cut(s)	313
ZrmI	AGTACT	1 cut(s)	419

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