Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004851

Physical Location & Seq

Genomic Coordinates Forward (+)

20000419 .. 20008260

Gene Structure 7842 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG139100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 354 bp

ATGTATGAGGATATCGATAATGCTAGCAAGGACGAGTTTGAGGCCCTGCTCTCGGAGGACAAGCTGCCGCCACCACCACCAATATGTGTTTCACTGCATTTCATCATGGAGATTGAAACGGGAGACATCCAGCTGCATGCACTAGTTGTTGATGCCAATGAGGAACATGAAGCACTGCTCAAACAGGAGCCTCAAGTGGAGAGCTTGGAGACAACACTAAGGAATATTTCCTGCTTGACCATTGGAGATGGTATTATGGTAGCATACAACAACAAGAAGTATTATATAGATATCATTGAATCAAAGCCTTCGAATGCAATAAGTATAATTGAGAGAGACTGTGAGAGACTGTGA

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

117

Amino Acids

13.25

Weight (kDa)

4.31

Isoelectric Point (pI)

57.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N2	PF24842	64 - 115	4.1e-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: OG0004851)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43341 FvH4_3g43342
rosa_chinensis	RchiOBHm_Chr3g0497221
rosa_laevigata	RLG00000022469
rosa_multiflora	Rmu_sc0000869.1_g000018
rosa_roxburghii	Rroxscaffold_4G00331510 Rroxscaffold_6G00388250 Rroxscaffold_6G00421640
rosa_rugosa	Rorug01G0131600.1 Rorug03G0292000 Rorug04G0439100 Rorug07G0306600
rosa_samantha	Rh1AG309600 Rh1BG121000 Rh1BG422000 Rh1CG290300 Rh1DG454700 Rh2AG238100 Rh2CG303800 Rh2CG398500 Rh2DG245600 Rh2DG339900 Rh3BG373300 Rh3CG152000 Rh3DG153000 Rh4BG233100 Rh6DG139100 Rh6DG164400 Rh7AG422700
rosa_wichuraiana	Rw1G027500 Rw3G029480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	68
AfiI	CCNNNNNNNGG	1 cut(s)	52
AgsI	TTSAA	2 cut(s)	116, 299
AhlI	ACTAGT	1 cut(s)	142
AjuI	GAANNNNNNNTTGG	2 cut(s)	73, 105
AluBI	AGCT	3 cut(s)	64, 133, 204
AluI	AGCT	3 cut(s)	64, 133, 204
Alw26I	GTCTC	4 cut(s)	117, 203, 330, 340
AoxI	GGCC	1 cut(s)	42
ApeKI	GCWGC	2 cut(s)	64, 133
AspS9I	GGNCC	1 cut(s)	43
AsuII	TTCGAA	1 cut(s)	311
AsuNHI	GCTAGC	1 cut(s)	23
BbvI	GCAGC	2 cut(s)	51, 120
BccI	CCATC	1 cut(s)	242
BcoDI	GTCTC	4 cut(s)	117, 203, 330, 340
BcuI	ACTAGT	1 cut(s)	142
BfaI	CTAG	2 cut(s)	24, 143
BisI	GCNGC	3 cut(s)	65, 68, 134
BlsI	GCNGC	3 cut(s)	66, 69, 135
BmgT120I	GGNCC	1 cut(s)	43
BmiI	GGNNCC	1 cut(s)	189
BmsI	GCATC	1 cut(s)	142
BmtI	GCTAGC	1 cut(s)	27
Bpu14I	TTCGAA	1 cut(s)	311
BpuEI	CTTGAG	1 cut(s)	177
Bsa29I	ATCGAT	1 cut(s)	15
Bsc4I	CCNNNNNNNGG	1 cut(s)	52
BseCI	ATCGAT	1 cut(s)	15
BseGI	GGATG	1 cut(s)	126
BseLI	CCNNNNNNNGG	1 cut(s)	52
BseXI	GCAGC	2 cut(s)	51, 120
BshFI	GGCC	1 cut(s)	44
BshVI	ATCGAT	1 cut(s)	15
BslI	CCNNNNNNNGG	1 cut(s)	52
BsmAI	GTCTC	4 cut(s)	117, 203, 330, 340
BsmI	GAATGC	1 cut(s)	319
BsnI	GGCC	1 cut(s)	44
Bsp119I	TTCGAA	1 cut(s)	311
BspACI	CCGC	1 cut(s)	68
BspANI	GGCC	1 cut(s)	44
BspDI	ATCGAT	1 cut(s)	15
BspLI	GGNNCC	1 cut(s)	189
BspOI	GCTAGC	1 cut(s)	27
BspT104I	TTCGAA	1 cut(s)	311
Bst4CI	ACNGT	2 cut(s)	341, 351
BstBI	TTCGAA	1 cut(s)	311
BstC8I	GCNNGC	2 cut(s)	25, 138
BstDEI	CTNAG	1 cut(s)	218
BstF5I	GGATG	1 cut(s)	126
BstMAI	GTCTC	4 cut(s)	117, 203, 330, 340
BstNSI	RCATGY	1 cut(s)	140
BstV1I	GCAGC	2 cut(s)	51, 120
Bsu15I	ATCGAT	1 cut(s)	15
BsuRI	GGCC	1 cut(s)	44
BsuTUI	ATCGAT	1 cut(s)	15
BtsCI	GGATG	1 cut(s)	126
BtsI	GCAGTG	2 cut(s)	92, 173
BtsIMutI	CAGTG	2 cut(s)	92, 173
Cac8I	GCNNGC	2 cut(s)	25, 138
Cfr13I	GGNCC	1 cut(s)	43
ClaI	ATCGAT	1 cut(s)	15
CviAII	CATG	3 cut(s)	106, 137, 167
CviJI	RGCY	6 cut(s)	44, 64, 133, 190, 204, 307
CviKI_1	RGCY	6 cut(s)	44, 64, 133, 190, 204, 307
DdeI	CTNAG	1 cut(s)	218
Eco32I	GATATC	2 cut(s)	13, 292
EcoO109I	RGGNCCY	1 cut(s)	43
EcoRV	GATATC	2 cut(s)	13, 292
FaeI	CATG	3 cut(s)	109, 140, 170
FatI	CATG	3 cut(s)	105, 136, 166
Fnu4HI	GCNGC	3 cut(s)	65, 68, 134
FokI	GGATG	1 cut(s)	113
Fsp4HI	GCNGC	3 cut(s)	65, 68, 134
FspBI	CTAG	2 cut(s)	24, 143
GluI	GCNGC	3 cut(s)	65, 68, 134
HaeIII	GGCC	1 cut(s)	44
Hin1II	CATG	3 cut(s)	109, 140, 170
HinfI	GANTC	1 cut(s)	299
Hpy188I	TCNGA	1 cut(s)	55
HpyAV	CCTTC	1 cut(s)	318
HpyCH4III	ACNGT	2 cut(s)	341, 351
HpyCH4V	TGCA	4 cut(s)	97, 136, 140, 317
HpyF3I	CTNAG	1 cut(s)	218
Hsp92II	CATG	3 cut(s)	109, 140, 170
LmnI	GCTCC	1 cut(s)	187
LpnPI	CCDG	4 cut(s)	59, 143, 170, 244
Lsp1109I	GCAGC	2 cut(s)	51, 120
LweI	GCATC	1 cut(s)	142
MaeI	CTAG	2 cut(s)	24, 143
MluCI	AATT	1 cut(s)	327
MnlI	CCTC	4 cut(s)	34, 49, 154, 201
MslI	CAYNNNNRTG	1 cut(s)	82
MspA1I	CMGCKG	1 cut(s)	133
Mva1269I	GAATGC	1 cut(s)	319
NheI	GCTAGC	1 cut(s)	23
NlaIII	CATG	3 cut(s)	109, 140, 170
NlaIV	GGNNCC	1 cut(s)	189
NspI	RCATGY	1 cut(s)	140
NspV	TTCGAA	1 cut(s)	311
PaeI	GCATGC	1 cut(s)	140
PctI	GAATGC	1 cut(s)	319
PfeI	GAWTC	1 cut(s)	299
PkrI	GCNGC	3 cut(s)	66, 69, 135
PspN4I	GGNNCC	1 cut(s)	189
PspPI	GGNCC	1 cut(s)	43
PvuII	CAGCTG	1 cut(s)	133
RseI	CAYNNNNRTG	1 cut(s)	82
SatI	GCNGC	3 cut(s)	65, 68, 134
Sau96I	GGNCC	1 cut(s)	43
SetI	ASST	3 cut(s)	66, 135, 206
SfaNI	GCATC	1 cut(s)	142
SfuI	TTCGAA	1 cut(s)	311
SmiMI	CAYNNNNRTG	1 cut(s)	82
SmlI	CTYRAG	1 cut(s)	192
SmoI	CTYRAG	1 cut(s)	192
SpeI	ACTAGT	1 cut(s)	142
SphI	GCATGC	1 cut(s)	140
Sse9I	AATT	1 cut(s)	327
SsiI	CCGC	1 cut(s)	68
SspI	AATATT	1 cut(s)	226
SspMI	CTAG	2 cut(s)	24, 143
TaaI	ACNGT	2 cut(s)	341, 351
TaqI	TCGA	2 cut(s)	15, 311
TasI	AATT	1 cut(s)	327
TauI	GCSGC	1 cut(s)	70
TfiI	GAWTC	1 cut(s)	299
TscAI	CASTG	2 cut(s)	99, 180
TseI	GCWGC	2 cut(s)	64, 133
TspDTI	ATGAA	2 cut(s)	91, 183
TspRI	CASTG	2 cut(s)	99, 180
XceI	RCATGY	1 cut(s)	140
XspI	CTAG	2 cut(s)	24, 143

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