Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0009690

Physical Location & Seq

Genomic Coordinates Reverse (-)

29363502 .. 29365225

Gene Structure 1724 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG272800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGCCTCCCTCAGCCCTCGACGTCCTTTCATCTCTACAGATGGCTTCTCCAATGTTGTTTGAGCTAGGACCATATTATTTTGATGCTGACAAGAATGAGACTGAGAAATCTCGCGTCTCTCATTGCGGGGTTTGGGAGTTCACTGCAGAAGAGGGCTTCATTTACATGCCTAATTGGATGATGCAGAATATGAACTTGCAAGAGGGAGGCCTTGTGCTGCTGCAAAATAAGAGTCTTCCGAAAGGCACTCATGTTAAGCTGCAGCCCCATACAAAGGACTTCTTAGACATTCCCAACCCAAAAGCTATGTTGGAGATGGCACTAAAGAGCTTTTCATGTTTAACAACTGGGGACACTCTTTTGCTACCATATGAACACTCATTGAAACAAAGCCTTCTAATGCCATAG

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

135

Amino Acids

15.27

Weight (kDa)

5.24

Isoelectric Point (pI)

56.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	1 - 80	3.2e-22	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	81 - 126	2.4e-16	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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Orthologous Genes (Group: OG0009690)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g23530
rosa_chinensis	RchiOBHm_Chr7g0212281 RchiOBHm_Chr7g0212841
rosa_laevigata	RLG00000002866 RLG00000002899
rosa_multiflora	Rmu_sc0000394.1_g000048 Rmu_sc0001911.1_g000048 Rmu_sc0013698.1_g000013 Rmu_sc0042115.1_g000001
rosa_roxburghii	Rroxscaffold_3G00246520 Rroxscaffold_3G00246930
rosa_rugosa	Rorug07G0133300 Rorug07G0136900
rosa_samantha	Rh7AG265900 Rh7AG268500 Rh7BG264100 Rh7CG282800 Rh7CG287500 Rh7DG272800 Rh7DG276600
rosa_wichuraiana	Rw7G023200 Rw7G023320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	24
AccII	CGCG	1 cut(s)	114
AciI	CCGC	1 cut(s)	126
AcyI	GRCGYC	1 cut(s)	21
AfiI	CCNNNNNNNGG	1 cut(s)	274
AgsI	TTSAA	1 cut(s)	385
AluBI	AGCT	4 cut(s)	64, 259, 305, 330
AluI	AGCT	4 cut(s)	64, 259, 305, 330
Alw26I	GTCTC	2 cut(s)	92, 121
AoxI	GGCC	1 cut(s)	208
ApeKI	GCWGC	4 cut(s)	217, 220, 259, 262
ArsI	GACNNNNNNTTYG	2 cut(s)	217, 249
AspS9I	GGNCC	1 cut(s)	68
AvaII	GGWCC	1 cut(s)	68
BbsI	GAAGAC	1 cut(s)	227
BbvCI	CCTCAGC	1 cut(s)	10
BbvI	GCAGC	4 cut(s)	204, 207, 246, 274
BccI	CCATC	2 cut(s)	34, 310
BcoDI	GTCTC	2 cut(s)	92, 121
BfaI	CTAG	1 cut(s)	65
BfmI	CTRYAG	3 cut(s)	35, 144, 260
BisI	GCNGC	4 cut(s)	218, 221, 260, 263
BlsI	GCNGC	4 cut(s)	219, 222, 261, 264
Bme18I	GGWCC	1 cut(s)	68
BmgT120I	GGNCC	1 cut(s)	68
BmrI	ACTGGG	1 cut(s)	357
BmsI	GCATC	2 cut(s)	73, 171
BmuI	ACTGGG	1 cut(s)	357
BpiI	GAAGAC	1 cut(s)	227
Bpu10I	CCTNAGC	1 cut(s)	10
BsaHI	GRCGYC	1 cut(s)	21
BsaXI	ACNNNNNCTCC	2 cut(s)	198, 228
Bsc4I	CCNNNNNNNGG	1 cut(s)	274
Bse1I	ACTGG	1 cut(s)	352
Bse3DI	GCAATG	1 cut(s)	121
BseGI	GGATG	1 cut(s)	183
BseLI	CCNNNNNNNGG	1 cut(s)	274
BseMI	GCAATG	1 cut(s)	121
BseMII	CTCAG	2 cut(s)	24, 93
BseNI	ACTGG	1 cut(s)	352
BseXI	GCAGC	4 cut(s)	204, 207, 246, 274
Bsh1236I	CGCG	1 cut(s)	114
BshFI	GGCC	1 cut(s)	210
BslFI	GGGAC	1 cut(s)	365
BslI	CCNNNNNNNGG	1 cut(s)	274
BsmAI	GTCTC	2 cut(s)	92, 121
BsmBI	CGTCTC	1 cut(s)	121
BsmFI	GGGAC	1 cut(s)	365
BsnI	GGCC	1 cut(s)	210
BspACI	CCGC	1 cut(s)	126
BspANI	GGCC	1 cut(s)	210
BspCNI	CTCAG	2 cut(s)	23, 94
BspFNI	CGCG	1 cut(s)	114
BspMAI	CTGCAG	2 cut(s)	148, 264
BsrDI	GCAATG	1 cut(s)	121
BsrI	ACTGG	1 cut(s)	352
BssNI	GRCGYC	1 cut(s)	21
Bst6I	CTCTTC	1 cut(s)	144
BstACI	GRCGYC	1 cut(s)	21
BstDEI	CTNAG	3 cut(s)	10, 102, 283
BstF5I	GGATG	1 cut(s)	183
BstFNI	CGCG	1 cut(s)	114
BstMAI	GTCTC	2 cut(s)	92, 121
BstNSI	RCATGY	1 cut(s)	169
BstSFI	CTRYAG	3 cut(s)	35, 144, 260
BstUI	CGCG	1 cut(s)	114
BstV1I	GCAGC	4 cut(s)	204, 207, 246, 274
BstV2I	GAAGAC	1 cut(s)	227
BsuRI	GGCC	1 cut(s)	210
BtsCI	GGATG	1 cut(s)	183
BtsI	GCAGTG	1 cut(s)	141
BtsIMutI	CAGTG	1 cut(s)	141
Cfr13I	GGNCC	1 cut(s)	68
CseI	GACGC	1 cut(s)	103
CviAII	CATG	3 cut(s)	166, 251, 336
DdeI	CTNAG	3 cut(s)	10, 102, 283
Eam1104I	CTCTTC	1 cut(s)	144
EarI	CTCTTC	1 cut(s)	144
Eco147I	AGGCCT	1 cut(s)	210
Eco47I	GGWCC	1 cut(s)	68
Esp3I	CGTCTC	1 cut(s)	121
FaeI	CATG	3 cut(s)	169, 254, 339
FalI	AAGNNNNNCTT	2 cut(s)	266, 298
FaqI	GGGAC	1 cut(s)	365
FatI	CATG	3 cut(s)	165, 250, 335
FauI	CCCGC	1 cut(s)	119
FauNDI	CATATG	1 cut(s)	370
Fnu4HI	GCNGC	4 cut(s)	218, 221, 260, 263
FokI	GGATG	1 cut(s)	190
Fsp4HI	GCNGC	4 cut(s)	218, 221, 260, 263
FspBI	CTAG	1 cut(s)	65
GluI	GCNGC	4 cut(s)	218, 221, 260, 263
HaeIII	GGCC	1 cut(s)	210
HgaI	GACGC	1 cut(s)	103
Hin1I	GRCGYC	1 cut(s)	21
Hin1II	CATG	3 cut(s)	169, 254, 339
HinfI	GANTC	1 cut(s)	232
Hpy166II	GTNNAC	1 cut(s)	141
Hpy188I	TCNGA	1 cut(s)	240
Hpy8I	GTNNAC	1 cut(s)	141
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	1 cut(s)	404
HpyCH4IV	ACGT	1 cut(s)	21
HpyCH4V	TGCA	5 cut(s)	146, 184, 199, 223, 262
HpyF3I	CTNAG	3 cut(s)	10, 102, 283
HpySE526I	ACGT	1 cut(s)	21
Hsp92I	GRCGYC	1 cut(s)	21
Hsp92II	CATG	3 cut(s)	169, 254, 339
LpnPI	CCDG	1 cut(s)	333
Lsp1109I	GCAGC	4 cut(s)	204, 207, 246, 274
LweI	GCATC	2 cut(s)	73, 171
MaeI	CTAG	1 cut(s)	65
MaeII	ACGT	1 cut(s)	21
MboII	GAAGA	2 cut(s)	161, 227
MluCI	AATT	1 cut(s)	172
MlyI	GAGTC	1 cut(s)	241
MmeI	TCCRAC	1 cut(s)	291
MnlI	CCTC	6 cut(s)	15, 19, 26, 145, 196, 200
MseI	TTAA	2 cut(s)	255, 341
MslI	CAYNNNNRTG	1 cut(s)	164
MvnI	CGCG	1 cut(s)	114
NdeI	CATATG	1 cut(s)	370
NlaIII	CATG	3 cut(s)	169, 254, 339
NspI	RCATGY	1 cut(s)	169
PceI	AGGCCT	1 cut(s)	210
PkrI	GCNGC	4 cut(s)	219, 222, 261, 264
PleI	GAGTC	1 cut(s)	240
PpsI	GAGTC	1 cut(s)	240
PspPI	GGNCC	1 cut(s)	68
PstI	CTGCAG	2 cut(s)	148, 264
RseI	CAYNNNNRTG	1 cut(s)	164
SaqAI	TTAA	2 cut(s)	255, 341
SatI	GCNGC	4 cut(s)	218, 221, 260, 263
Sau96I	GGNCC	1 cut(s)	68
SchI	GAGTC	1 cut(s)	241
SetI	ASST	5 cut(s)	24, 66, 261, 307, 332
SfaNI	GCATC	2 cut(s)	73, 171
SfcI	CTRYAG	3 cut(s)	35, 144, 260
SinI	GGWCC	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	164
Sse9I	AATT	1 cut(s)	172
SseBI	AGGCCT	1 cut(s)	210
SsiI	CCGC	1 cut(s)	126
SspMI	CTAG	1 cut(s)	65
StuI	AGGCCT	1 cut(s)	210
TaiI	ACGT	1 cut(s)	24
TaqI	TCGA	1 cut(s)	18
TasI	AATT	1 cut(s)	172
Tru1I	TTAA	2 cut(s)	255, 341
Tru9I	TTAA	2 cut(s)	255, 341
TscAI	CASTG	1 cut(s)	148
TseI	GCWGC	4 cut(s)	217, 220, 259, 262
TspDTI	ATGAA	5 cut(s)	18, 148, 206, 324, 387
TspRI	CASTG	1 cut(s)	148
VpaK11BI	GGWCC	1 cut(s)	68
XceI	RCATGY	1 cut(s)	169
XspI	CTAG	1 cut(s)	65
ZraI	GACGTC	1 cut(s)	22

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