Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0007333

Physical Location & Seq

Genomic Coordinates Reverse (-)

19140181 .. 19142965

Gene Structure 2785 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00015330.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGAATACCCTCGAAGTTCAGGCTTTGAGCAGAGTTATCGTTGTTACCCTGTCTCGTTCATCGACAAGCAACATCTGGAAAAGGGTGATAAAAACGCATGATAGTATCCAATACTTGTTTGGTTTCTTTTTCCTTCCAGTTATAATGCCTCCCTCAGCTCTCGATCGCCTCGCATCTATGCACGTGGACTACCCTATGTTGTTTGAACTTAACAATGCTACTGCTGGACGAGTTACTCATTGTGGGGTCTTGGAATTTGTTGCTGATGAGGGCCTCATATATGTACCATACTGGATGATGGAGAACATGCTCCTACAAGAGGGAGACATTGTTCAAGTGAAGAACAAAAGCCTGGTAAAGGGAACCTATGTGAAGTTGCAGCCCCACACCAAGGACTTCCTTGATATTTCAAACCCCAAAGCCATTTTGGAGACTACATTGAGGAGCTACTCTTGTTTGACCACTGGTGACACTATCATGGTTCCTTATAACAATAAGAAGTATTACATTAACATAGTTGAAGCAAAACCCTCATCTGCAATCAGTATCATTGAGACAGACTGTGAGGTTGATTTTGCCCCTCCTCTTGATTACGTGGAACCTGAAAAACCAGCTCCATCGACGTCATCTACTTTGCCAAAGAAGAGACCACAAGAAGCTGAAGAAGAACCAGTTCAAAAGGTTGCAAGGTTCAATCCATTTACAGGTTCAGCAAGGCGATTGGATGGAAAGCCTTTGATGGAATCAGTTGCACCAGTTTCCTCTCCCATACTTAAGCAGCACCAACTGGAGAGTGAAAATGGAGCCAAGGATTCCAAGCCATCAACTTCTGCTTCACGCCAACGTTCTGGAAAGCTTGTGTTTGGTTCAAATTCCAACCCGCCCACAAAGGAAGCCCCAAAAGCTGCTCCAAAGAAACAAGAGTCGTCTGAGAAGGCAGCGGAGGAAAAAGAGACAAAGTTCCAAGCATTCACAGGGAAGAAGTATTCTCTGAAAGGGTGA

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

333

Amino Acids

37.05

Weight (kDa)

8.71

Isoelectric Point (pI)

53.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	47 - 118	7.3e-30	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	120 - 195	2.9e-37	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

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Orthologous Genes (Group: OG0007333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29070 AT2G29070 AT2G29070
fragaria_vesca	FvH4_3g36770 FvH4_3g36770
malus_domestica	MD03G1088700.v1.1 MD11G1097700.v1.1
prunus_persica	Prupe.6G073100_v2.0.a1 Prupe.6G073100_v2.0.a1
pyrus_communis	pycom03g07030 pycom11g08240
rosa_chinensis	RchiOBHm_Chr5g0065821
rosa_laevigata	RLG00000035819
rosa_multiflora	Rmu_sc0042868.1_g000003
rosa_roxburghii	Rroxscaffold_1G00015330
rosa_rugosa	Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000
rosa_samantha	Rh5AG432700 Rh5BG449000 Rh5CG471200 Rh5DG462500
rosa_wichuraiana	Rw5G040580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	143, 489
AatII	GACGTC	1 cut(s)	626
AciI	CCGC	2 cut(s)	881, 941
AclI	AACGTT	1 cut(s)	844
AcsI	RAATTY	2 cut(s)	254, 871
AcuI	CTGAAG	1 cut(s)	681
AcvI	CACGTG	1 cut(s)	184
AcyI	GRCGYC	1 cut(s)	623
AfaI	GTAC	1 cut(s)	285
AfiI	CCNNNNNNNGG	4 cut(s)	319, 358, 391, 704
AflII	CTTAAG	1 cut(s)	773
AgsI	TTSAA	7 cut(s)	206, 335, 411, 521, 677, 694, 870
AjnI	CCWGG	1 cut(s)	351
AloI	GAACNNNNNNTCC	2 cut(s)	315, 347
AluBI	AGCT	6 cut(s)	158, 447, 614, 659, 856, 905
AluI	AGCT	6 cut(s)	158, 447, 614, 659, 856, 905
Alw26I	GTCTC	6 cut(s)	57, 318, 425, 548, 640, 947
AoxI	GGCC	1 cut(s)	271
ApeKI	GCWGC	4 cut(s)	379, 778, 905, 938
ApoI	RAATTY	2 cut(s)	254, 871
Asp700I	GAANNNNTTC	1 cut(s)	672
AspS9I	GGNCC	1 cut(s)	271
AsuHPI	GGTGA	2 cut(s)	97, 479
BbrPI	CACGTG	1 cut(s)	184
BbvCI	CCTCAGC	1 cut(s)	154
BbvI	GCAGC	4 cut(s)	391, 790, 892, 950
BccI	CCATC	5 cut(s)	292, 625, 719, 733, 829
BcgI	CGANNNNNNTGC	2 cut(s)	19, 53
BciT130I	CCWGG	1 cut(s)	353
BciVI	GTATCC	1 cut(s)	116
BcoDI	GTCTC	6 cut(s)	57, 318, 425, 548, 640, 947
BfrI	CTTAAG	1 cut(s)	773
BfuI	GTATCC	1 cut(s)	116
BisI	GCNGC	4 cut(s)	380, 779, 906, 939
BlsI	GCNGC	4 cut(s)	381, 780, 907, 940
Bme1390I	CCNGG	1 cut(s)	353
BmgT120I	GGNCC	1 cut(s)	271
BmiI	GGNNCC	4 cut(s)	364, 483, 600, 805
BmrFI	CCNGG	1 cut(s)	353
BmsI	GCATC	1 cut(s)	182
BpmI	CTGGAG	1 cut(s)	809
Bpu10I	CCTNAGC	1 cut(s)	154
BsaAI	YACGTR	2 cut(s)	184, 595
BsaHI	GRCGYC	1 cut(s)	623
BsaI	GGTCTC	1 cut(s)	640
BsaJI	CCNNGG	2 cut(s)	390, 807
BsaXI	ACNNNNNCTCC	2 cut(s)	315, 345
Bsc4I	CCNNNNNNNGG	4 cut(s)	319, 358, 391, 704
Bse1I	ACTGG	6 cut(s)	137, 296, 469, 671, 755, 792
BseBI	CCWGG	1 cut(s)	353
BseDI	CCNNGG	2 cut(s)	390, 807
BseGI	GGATG	2 cut(s)	300, 730
BseLI	CCNNNNNNNGG	4 cut(s)	319, 358, 391, 704
BseMII	CTCAG	2 cut(s)	168, 921
BseNI	ACTGG	6 cut(s)	137, 296, 469, 671, 755, 792
BseRI	GAGGAG	2 cut(s)	457, 573
BseXI	GCAGC	4 cut(s)	391, 790, 892, 950
Bsh1285I	CGRYCG	1 cut(s)	166
BshFI	GGCC	1 cut(s)	273
BsiEI	CGRYCG	1 cut(s)	166
BslI	CCNNNNNNNGG	4 cut(s)	319, 358, 391, 704
BsmAI	GTCTC	6 cut(s)	57, 318, 425, 548, 640, 947
BsmI	GAATGC	1 cut(s)	968
BsnI	GGCC	1 cut(s)	273
Bso31I	GGTCTC	1 cut(s)	640
Bsp143I	GATC	1 cut(s)	163
BspACI	CCGC	2 cut(s)	881, 941
BspANI	GGCC	1 cut(s)	273
BspCNI	CTCAG	2 cut(s)	167, 922
BspLI	GGNNCC	4 cut(s)	364, 483, 600, 805
BspTI	CTTAAG	1 cut(s)	773
BspTNI	GGTCTC	1 cut(s)	640
BsrI	ACTGG	6 cut(s)	137, 296, 469, 671, 755, 792
BssECI	CCNNGG	2 cut(s)	390, 807
BssMI	GATC	1 cut(s)	163
BssNI	GRCGYC	1 cut(s)	623
BssT1I	CCWWGG	2 cut(s)	390, 807
Bst2UI	CCWGG	1 cut(s)	353
Bst4CI	ACNGT	1 cut(s)	563
Bst6I	CTCTTC	1 cut(s)	638
BstACI	GRCGYC	1 cut(s)	623
BstAFI	CTTAAG	1 cut(s)	773
BstBAI	YACGTR	2 cut(s)	184, 595
BstDEI	CTNAG	2 cut(s)	154, 930
BstENI	CCTNNNNNAGG	2 cut(s)	317, 356
BstF5I	GGATG	2 cut(s)	300, 730
BstKTI	GATC	1 cut(s)	166
BstMAI	GTCTC	6 cut(s)	57, 318, 425, 548, 640, 947
BstMBI	GATC	1 cut(s)	163
BstMCI	CGRYCG	1 cut(s)	166
BstMWI	GCNNNNNNNGC	1 cut(s)	902
BstNI	CCWGG	1 cut(s)	353
BstNSI	RCATGY	1 cut(s)	310
BstSCI	CCNGG	1 cut(s)	351
BstV1I	GCAGC	4 cut(s)	391, 790, 892, 950
BstXI	CCANNNNNNTGG	1 cut(s)	848
BsuI	GTATCC	1 cut(s)	116
BsuRI	GGCC	1 cut(s)	273
BtsCI	GGATG	2 cut(s)	300, 730
BtsIMutI	CAGTG	1 cut(s)	462
Cfr13I	GGNCC	1 cut(s)	271
Csp6I	GTAC	1 cut(s)	284
CviAII	CATG	3 cut(s)	98, 307, 478
CviQI	GTAC	1 cut(s)	284
DdeI	CTNAG	2 cut(s)	154, 930
DpnI	GATC	1 cut(s)	165
DpnII	GATC	1 cut(s)	163
Eam1104I	CTCTTC	1 cut(s)	638
EarI	CTCTTC	1 cut(s)	638
Eco130I	CCWWGG	2 cut(s)	390, 807
Eco31I	GGTCTC	1 cut(s)	640
Eco57I	CTGAAG	1 cut(s)	681
Eco72I	CACGTG	1 cut(s)	184
EcoNI	CCTNNNNNAGG	2 cut(s)	317, 356
EcoO109I	RGGNCCY	1 cut(s)	271
EcoRII	CCWGG	1 cut(s)	351
EcoT14I	CCWWGG	2 cut(s)	390, 807
ErhI	CCWWGG	2 cut(s)	390, 807
FaeI	CATG	3 cut(s)	101, 310, 481
FatI	CATG	3 cut(s)	97, 306, 477
FauI	CCCGC	1 cut(s)	888
Fnu4HI	GCNGC	4 cut(s)	380, 779, 906, 939
FokI	GGATG	2 cut(s)	307, 737
Fsp4HI	GCNGC	4 cut(s)	380, 779, 906, 939
GluI	GCNGC	4 cut(s)	380, 779, 906, 939
GsuI	CTGGAG	1 cut(s)	809
HaeIII	GGCC	1 cut(s)	273
Hin1I	GRCGYC	1 cut(s)	623
Hin1II	CATG	3 cut(s)	101, 310, 481
HindIII	AAGCTT	1 cut(s)	854
HinfI	GANTC	3 cut(s)	743, 812, 923
HphI	GGTGA	2 cut(s)	97, 479
Hpy166II	GTNNAC	1 cut(s)	187
Hpy188I	TCNGA	2 cut(s)	931, 993
Hpy188III	TCNNGA	4 cut(s)	76, 161, 587, 849
Hpy8I	GTNNAC	1 cut(s)	187
Hpy99I	CGWCG	1 cut(s)	625
HpyAV	CCTTC	2 cut(s)	143, 928
HpyCH4III	ACNGT	1 cut(s)	563
HpyCH4IV	ACGT	4 cut(s)	183, 594, 623, 844
HpyCH4V	TGCA	5 cut(s)	181, 379, 539, 686, 752
HpyF10VI	GCNNNNNNNGC	1 cut(s)	902
HpyF3I	CTNAG	2 cut(s)	154, 930
HpySE526I	ACGT	4 cut(s)	183, 594, 623, 844
Hsp92I	GRCGYC	1 cut(s)	623
Hsp92II	CATG	3 cut(s)	101, 310, 481
Kzo9I	GATC	1 cut(s)	163
LmnI	GCTCC	5 cut(s)	315, 444, 619, 803, 913
Lsp1109I	GCAGC	4 cut(s)	391, 790, 892, 950
LweI	GCATC	1 cut(s)	182
MaeII	ACGT	4 cut(s)	183, 594, 623, 844
MaeIII	GTNAC	3 cut(s)	43, 232, 467
MalI	GATC	1 cut(s)	165
MboI	GATC	1 cut(s)	163
MboII	GAAGA	5 cut(s)	352, 655, 674, 677, 991
MluCI	AATT	2 cut(s)	254, 871
MlyI	GAGTC	1 cut(s)	932
MmeI	TCCRAC	1 cut(s)	900
MroXI	GAANNNNTTC	1 cut(s)	672
MseI	TTAA	3 cut(s)	210, 510, 774
MslI	CAYNNNNRTG	1 cut(s)	476
MspA1I	CMGCKG	1 cut(s)	941
MspCI	CTTAAG	1 cut(s)	773
MspR9I	CCNGG	1 cut(s)	353
Mva1269I	GAATGC	1 cut(s)	968
MvaI	CCWGG	1 cut(s)	353
MwoI	GCNNNNNNNGC	1 cut(s)	902
NdeII	GATC	1 cut(s)	163
NlaIII	CATG	3 cut(s)	101, 310, 481
NlaIV	GGNNCC	4 cut(s)	364, 483, 600, 805
NmuCI	GTSAC	1 cut(s)	467
NspI	RCATGY	1 cut(s)	310
PctI	GAATGC	1 cut(s)	968
PdmI	GAANNNNTTC	1 cut(s)	672
PfeI	GAWTC	2 cut(s)	743, 812
PkrI	GCNGC	4 cut(s)	381, 780, 907, 940
Ple19I	CGATCG	1 cut(s)	166
PleI	GAGTC	1 cut(s)	931
PmaCI	CACGTG	1 cut(s)	184
PmlI	CACGTG	1 cut(s)	184
PpsI	GAGTC	1 cut(s)	931
Ppu21I	YACGTR	2 cut(s)	184, 595
PsiI	TTATAA	2 cut(s)	143, 489
Psp1406I	AACGTT	1 cut(s)	844
Psp6I	CCWGG	1 cut(s)	351
PspCI	CACGTG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	351
PspN4I	GGNNCC	4 cut(s)	364, 483, 600, 805
PspPI	GGNCC	1 cut(s)	271
PvuI	CGATCG	1 cut(s)	166
RsaI	GTAC	1 cut(s)	285
RsaNI	GTAC	1 cut(s)	284
RseI	CAYNNNNRTG	1 cut(s)	476
SaqAI	TTAA	3 cut(s)	210, 510, 774
SatI	GCNGC	4 cut(s)	380, 779, 906, 939
Sau3AI	GATC	1 cut(s)	163
Sau96I	GGNCC	1 cut(s)	271
SchI	GAGTC	1 cut(s)	932
ScrFI	CCNGG	1 cut(s)	353
SfaNI	GCATC	1 cut(s)	182
SmiMI	CAYNNNNRTG	1 cut(s)	476
SmlI	CTYRAG	1 cut(s)	773
SmoI	CTYRAG	1 cut(s)	773
Sse9I	AATT	2 cut(s)	254, 871
SsiI	CCGC	2 cut(s)	881, 941
StyD4I	CCNGG	1 cut(s)	351
StyI	CCWWGG	2 cut(s)	390, 807
TaaI	ACNGT	1 cut(s)	563
TaiI	ACGT	4 cut(s)	186, 597, 626, 847
TaqI	TCGA	4 cut(s)	12, 62, 162, 620
TasI	AATT	2 cut(s)	254, 871
TfiI	GAWTC	2 cut(s)	743, 812
Tru1I	TTAA	3 cut(s)	210, 510, 774
Tru9I	TTAA	3 cut(s)	210, 510, 774
TscAI	CASTG	1 cut(s)	469
TseFI	GTSAC	1 cut(s)	467
TseI	GCWGC	4 cut(s)	379, 778, 905, 938
Tsp45I	GTSAC	1 cut(s)	467
TspDTI	ATGAA	2 cut(s)	17, 48
TspRI	CASTG	1 cut(s)	469
Vha464I	CTTAAG	1 cut(s)	773
XagI	CCTNNNNNAGG	2 cut(s)	317, 356
XapI	RAATTY	2 cut(s)	254, 871
XceI	RCATGY	1 cut(s)	310
XcmI	CCANNNNNNNNNTGG	2 cut(s)	116, 424
XmnI	GAANNNNTTC	1 cut(s)	672
ZraI	GACGTC	1 cut(s)	624

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