Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0009690

Physical Location & Seq

Genomic Coordinates Forward (+)

29821338 .. 29822477

Gene Structure 1140 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG276600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1140 bp

ATGGATTTGAATGAAAACGGGAGTTATGATTCTGACCAGACTACATACTACTCCGCTGACTCCGGCATGAGTGATGATGAGATAGGGTCTGACATGGGATTTGAGGATGATAAAGCTTACGAGGTAGGTTCTGACATGAGTATTACTGATGGGGATGGTGAGATAGGGCACTCTGAGCCCAGTTATGGCGGCCATGAATATGATGATTTTGTTGGCACGACACCGTTTTGGCATAGGTATCATTGTTATCCTGCATCTAAAACTGAAAAGCATGCATACACTGAGAGTAGTGATAAAATCATAATGCCTCCCTCAGCCCTCGACGTCCTTTCTTCTCTAAACATTGGTTATCCAATGTTGTTCGAGTTCCGGCCATATTCTTTTGATGCTGCCGAGAATAATGAGACTGAGAAATTTCGTGTCTCTCACTGTGGGGTTTGGGAGTTCACTGCAGAAGAAGGCTTTGTCTACATGCCTAATTGGATGATGGAAAATATGAACTTGAAAGAGGGAGACCTTGTGCTGCTTCAAAACCAGACTCTTCCGAAAGGCAGTCATGTCAAATTGCAGCCTCATACAAAGGACTTCTTGGACATCCCTGACCCAAAAGCTATGTTGGAGGCGGCTCTCGGGACGTTTTCTTGTTTAACAACTGGTGATACTATTGTGCTACCTTATGAGAACAAGAAATATTATATGGATATCATTGAAACAAAGCCTTCTGATGCCATAGGCATTATTGACACAGACTGTGAGGTTGACTTTGCACCTCCTCTTGACTATAAGGAACCTGAGAAACCTGTTGCTTCATCAATTCCTCTGAACAAGGAAGCAGATGGCCAAGTTGACAAACCTAAATTCAGCCCTTTTAAGGGAACTGGGAGGCGTTTGGATGGCAACCCTTTGCAGTATGAGTCAGCATTAGATTCTTCCTCATTTGTTGCCGCGAATGGTAATCCACAACCTTGTACAGAATCTAGTTCACGAGCTACTAGACGCCGGGCTCAGGGGAAGCTTGTTTTTGGCGCAGATACTGCTCCAAAGGTAGCCTCAAAAGAGGTCAAACAACAGCAGCAGCTCCAAGAGAAGGAAGAGCCAAAGTTCCTGGCTTTTACTGGGAAAATGTACTCCCTAACTTGA

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

379

Amino Acids

42.25

Weight (kDa)

4.56

Isoelectric Point (pI)

49.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	78 - 182	2.7e-30	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	183 - 258	1.3e-31	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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Publication-ready

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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)	327
AccI	GTMKAC	1 cut(s)	468
AccII	CGCG	1 cut(s)	947
AciI	CCGC	4 cut(s)	54, 189, 623, 945
AcoI	YGGCCR	3 cut(s)	190, 371, 838
AcsI	RAATTY	2 cut(s)	413, 857
AcyI	GRCGYC	2 cut(s)	324, 997
AfaI	GTAC	2 cut(s)	970, 1127
AfiI	CCNNNNNNNGG	5 cut(s)	185, 871, 872, 1006, 1087
AgsI	TTSAA	4 cut(s)	10, 505, 530, 710
AjnI	CCWGG	1 cut(s)	1104
AluBI	AGCT	5 cut(s)	116, 611, 989, 1015, 1078
AluI	AGCT	5 cut(s)	116, 611, 989, 1015, 1078
Alw26I	GTCTC	3 cut(s)	398, 427, 507
AlwNI	CAGNNNCTG	1 cut(s)	1034
Ama87I	CYCGRG	1 cut(s)	629
AoxI	GGCC	3 cut(s)	190, 371, 838
ApeKI	GCWGC	5 cut(s)	389, 523, 568, 1072, 1075
ApoI	RAATTY	2 cut(s)	413, 857
ArsI	GACNNNNNNTTYG	2 cut(s)	83, 115
AspLEI	GCGC	1 cut(s)	1028
AsuC2I	CCSGG	1 cut(s)	1001
AsuHPI	GGTGA	2 cut(s)	170, 668
AvaI	CYCGRG	1 cut(s)	629
BaeGI	GKGCMC	1 cut(s)	171
BaeI	ACNNNNGTAYC	2 cut(s)	651, 684
BalI	TGGCCA	1 cut(s)	840
BanII	GRGCYC	2 cut(s)	180, 1006
BauI	CACGAG	1 cut(s)	984
BbvCI	CCTCAGC	1 cut(s)	313
BbvI	GCAGC	5 cut(s)	376, 510, 580, 1084, 1087
BccI	CCATC	5 cut(s)	143, 149, 481, 830, 887
BciT130I	CCWGG	1 cut(s)	1106
BcnI	CCSGG	1 cut(s)	1001
BcoDI	GTCTC	3 cut(s)	398, 427, 507
BfaI	CTAG	2 cut(s)	978, 993
BfmI	CTRYAG	1 cut(s)	450
BisI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 945, 1073, 1076
BlsI	GCNGC	8 cut(s)	191, 391, 525, 570, 625, 946, 1074, 1077
Bme1390I	CCNGG	2 cut(s)	1001, 1106
BmeT110I	CYCGRG	1 cut(s)	629
BmiI	GGNNCC	1 cut(s)	789
BmrFI	CCNGG	2 cut(s)	1001, 1106
BmrI	ACTGGG	3 cut(s)	174, 888, 1125
BmsI	GCATC	3 cut(s)	263, 376, 715
BmuI	ACTGGG	3 cut(s)	174, 888, 1125
Bpu10I	CCTNAGC	2 cut(s)	313, 1005
BpuMI	CCSGG	1 cut(s)	1001
BsaHI	GRCGYC	2 cut(s)	324, 997
BsaI	GGTCTC	1 cut(s)	507
BsaXI	ACNNNNNCTCC	2 cut(s)	504, 534
Bsc4I	CCNNNNNNNGG	5 cut(s)	185, 871, 872, 1006, 1087
Bse1I	ACTGG	4 cut(s)	180, 658, 883, 1120
BseBI	CCWGG	1 cut(s)	1106
BseGI	GGATG	5 cut(s)	112, 160, 489, 594, 898
BseLI	CCNNNNNNNGG	5 cut(s)	185, 871, 872, 1006, 1087
BseMII	CTCAG	6 cut(s)	165, 273, 327, 399, 783, 1019
BseNI	ACTGG	4 cut(s)	180, 658, 883, 1120
BseRI	GAGGAG	1 cut(s)	762
BseSI	GKGCMC	1 cut(s)	171
BseXI	GCAGC	5 cut(s)	376, 510, 580, 1084, 1087
Bsh1236I	CGCG	1 cut(s)	947
BshFI	GGCC	3 cut(s)	192, 373, 840
BsiHKCI	CYCGRG	1 cut(s)	629
BsiSI	CCGG	3 cut(s)	63, 370, 1000
BslFI	GGGAC	1 cut(s)	646
BslI	CCNNNNNNNGG	5 cut(s)	185, 871, 872, 1006, 1087
BsmAI	GTCTC	3 cut(s)	398, 427, 507
BsmFI	GGGAC	1 cut(s)	646
BsnI	GGCC	3 cut(s)	192, 373, 840
Bso31I	GGTCTC	1 cut(s)	507
BsoBI	CYCGRG	1 cut(s)	629
Bsp1286I	GDGCHC	3 cut(s)	171, 180, 1006
Bsp1407I	TGTACA	1 cut(s)	968
BspACI	CCGC	4 cut(s)	54, 189, 623, 945
BspANI	GGCC	3 cut(s)	192, 373, 840
BspCNI	CTCAG	6 cut(s)	166, 274, 326, 400, 784, 1018
BspFNI	CGCG	1 cut(s)	947
BspLI	GGNNCC	1 cut(s)	789
BspMAI	CTGCAG	1 cut(s)	454
BspQI	GCTCTTC	1 cut(s)	1086
BspTNI	GGTCTC	1 cut(s)	507
BsrGI	TGTACA	1 cut(s)	968
BsrI	ACTGG	4 cut(s)	180, 658, 883, 1120
BssNI	GRCGYC	2 cut(s)	324, 997
BssSI	CACGAG	1 cut(s)	984
Bst2BI	CACGAG	1 cut(s)	984
Bst2UI	CCWGG	1 cut(s)	1106
Bst4CI	ACNGT	3 cut(s)	225, 431, 752
Bst6I	CTCTTC	2 cut(s)	546, 1086
BstACI	GRCGYC	2 cut(s)	324, 997
BstAPI	GCANNNNNTGC	1 cut(s)	1034
BstAUI	TGTACA	1 cut(s)	968
BstC8I	GCNNGC	1 cut(s)	273
BstDEI	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 1005
BstF5I	GGATG	5 cut(s)	112, 160, 489, 594, 898
BstFNI	CGCG	1 cut(s)	947
BstHHI	GCGC	1 cut(s)	1028
BstMAI	GTCTC	3 cut(s)	398, 427, 507
BstMWI	GCNNNNNNNGC	2 cut(s)	175, 1034
BstNI	CCWGG	1 cut(s)	1106
BstNSI	RCATGY	2 cut(s)	275, 475
BstSCI	CCNGG	2 cut(s)	999, 1104
BstSFI	CTRYAG	1 cut(s)	450
BstSLI	GKGCMC	1 cut(s)	171
BstUI	CGCG	1 cut(s)	947
BstV1I	GCAGC	5 cut(s)	376, 510, 580, 1084, 1087
BsuRI	GGCC	3 cut(s)	192, 373, 840
BtsCI	GGATG	5 cut(s)	112, 160, 489, 594, 898
BtsI	GCAGTG	1 cut(s)	447
BtsIMutI	CAGTG	3 cut(s)	279, 427, 447
Cac8I	GCNNGC	1 cut(s)	273
CaiI	CAGNNNCTG	1 cut(s)	1034
CfoI	GCGC	1 cut(s)	1028
CseI	GACGC	1 cut(s)	1005
Csp6I	GTAC	2 cut(s)	969, 1126
CviAII	CATG	7 cut(s)	67, 94, 136, 194, 272, 472, 557
CviQI	GTAC	2 cut(s)	969, 1126
DdeI	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 1005
EaeI	YGGCCR	3 cut(s)	190, 371, 838
Eam1104I	CTCTTC	2 cut(s)	546, 1086
EarI	CTCTTC	2 cut(s)	546, 1086
Eco24I	GRGCYC	2 cut(s)	180, 1006
Eco31I	GGTCTC	1 cut(s)	507
Eco32I	GATATC	1 cut(s)	703
Eco88I	CYCGRG	1 cut(s)	629
EcoRII	CCWGG	1 cut(s)	1104
EcoRV	GATATC	1 cut(s)	703
EcoT22I	ATGCAT	1 cut(s)	277
EcoT38I	GRGCYC	2 cut(s)	180, 1006
FaeI	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
FalI	AAGNNNNNCTT	2 cut(s)	572, 604
FaqI	GGGAC	1 cut(s)	646
FatI	CATG	7 cut(s)	66, 93, 135, 193, 271, 471, 556
FblI	GTMKAC	1 cut(s)	468
Fnu4HI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 945, 1073, 1076
FokI	GGATG	5 cut(s)	119, 167, 496, 581, 905
FriOI	GRGCYC	2 cut(s)	180, 1006
Fsp4HI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 945, 1073, 1076
FspBI	CTAG	2 cut(s)	978, 993
GlaI	GCGC	1 cut(s)	1027
GluI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 945, 1073, 1076
HaeIII	GGCC	3 cut(s)	192, 373, 840
HapII	CCGG	3 cut(s)	63, 370, 1000
HgaI	GACGC	1 cut(s)	1005
HhaI	GCGC	1 cut(s)	1028
Hin1I	GRCGYC	2 cut(s)	324, 997
Hin1II	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
Hin6I	GCGC	1 cut(s)	1026
HinP1I	GCGC	1 cut(s)	1026
HincII	GTYRAC	2 cut(s)	760, 847
HindII	GTYRAC	2 cut(s)	760, 847
HindIII	AAGCTT	2 cut(s)	114, 1013
HinfI	GANTC	6 cut(s)	29, 59, 538, 914, 926, 974
HpaII	CCGG	3 cut(s)	63, 370, 1000
HphI	GGTGA	2 cut(s)	170, 668
Hpy166II	GTNNAC	5 cut(s)	447, 469, 760, 847, 983
Hpy188I	TCNGA	7 cut(s)	34, 91, 133, 175, 546, 724, 822
Hpy188III	TCNNGA	3 cut(s)	631, 776, 984
Hpy8I	GTNNAC	5 cut(s)	447, 469, 760, 847, 983
Hpy99I	CGWCG	1 cut(s)	326
HpyAV	CCTTC	3 cut(s)	452, 729, 1081
HpyCH4III	ACNGT	3 cut(s)	225, 431, 752
HpyCH4IV	ACGT	2 cut(s)	324, 635
HpyCH4V	TGCA	6 cut(s)	254, 275, 452, 568, 767, 907
HpyF10VI	GCNNNNNNNGC	2 cut(s)	175, 1034
HpyF3I	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 1005
HpySE526I	ACGT	2 cut(s)	324, 635
Hsp92I	GRCGYC	2 cut(s)	324, 997
Hsp92II	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
HspAI	GCGC	1 cut(s)	1026
LguI	GCTCTTC	1 cut(s)	1086
LmnI	GCTCC	2 cut(s)	1042, 1083
Lsp1109I	GCAGC	5 cut(s)	376, 510, 580, 1084, 1087
LweI	GCATC	3 cut(s)	263, 376, 715
MaeI	CTAG	2 cut(s)	978, 993
MaeII	ACGT	2 cut(s)	324, 635
MboII	GAAGA	5 cut(s)	324, 467, 533, 921, 1103
MhlI	GDGCHC	3 cut(s)	171, 180, 1006
MlsI	TGGCCA	1 cut(s)	840
MluCI	AATT	5 cut(s)	413, 478, 563, 813, 857
MluNI	TGGCCA	1 cut(s)	840
MlyI	GAGTC	3 cut(s)	53, 532, 923
MmeI	TCCRAC	1 cut(s)	597
Mox20I	TGGCCA	1 cut(s)	840
Mph1103I	ATGCAT	1 cut(s)	277
MscI	TGGCCA	1 cut(s)	840
MseI	TTAA	2 cut(s)	647, 870
MslI	CAYNNNNRTG	1 cut(s)	198
Msp20I	TGGCCA	1 cut(s)	840
MspA1I	CMGCKG	1 cut(s)	56
MspI	CCGG	3 cut(s)	63, 370, 1000
MspR9I	CCNGG	2 cut(s)	1001, 1106
MvaI	CCWGG	1 cut(s)	1106
MvnI	CGCG	1 cut(s)	947
MwoI	GCNNNNNNNGC	2 cut(s)	175, 1034
NciI	CCSGG	1 cut(s)	1001
NlaIII	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
NlaIV	GGNNCC	1 cut(s)	789
NmeAIII	GCCGAG	1 cut(s)	418
NsiI	ATGCAT	1 cut(s)	277
NspI	RCATGY	2 cut(s)	275, 475
PaeI	GCATGC	1 cut(s)	275
PciSI	GCTCTTC	1 cut(s)	1086
PfeI	GAWTC	3 cut(s)	29, 926, 974
PkrI	GCNGC	8 cut(s)	191, 391, 525, 570, 625, 946, 1074, 1077
PleI	GAGTC	3 cut(s)	53, 532, 922
PpsI	GAGTC	3 cut(s)	53, 532, 922
Psp6I	CCWGG	1 cut(s)	1104
PspGI	CCWGG	1 cut(s)	1104
PspN4I	GGNNCC	1 cut(s)	789
PstI	CTGCAG	1 cut(s)	454
PstNI	CAGNNNCTG	1 cut(s)	1034
RsaI	GTAC	2 cut(s)	970, 1127
RsaNI	GTAC	2 cut(s)	969, 1126
RseI	CAYNNNNRTG	1 cut(s)	198
SapI	GCTCTTC	1 cut(s)	1086
SaqAI	TTAA	2 cut(s)	647, 870
SatI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 945, 1073, 1076
SchI	GAGTC	3 cut(s)	53, 532, 923
ScrFI	CCNGG	2 cut(s)	1001, 1106
SduI	GDGCHC	3 cut(s)	171, 180, 1006
SfaNI	GCATC	3 cut(s)	263, 376, 715
SfcI	CTRYAG	1 cut(s)	450
SmiMI	CAYNNNNRTG	1 cut(s)	198
SphI	GCATGC	1 cut(s)	275
Sse9I	AATT	5 cut(s)	413, 478, 563, 813, 857
SsiI	CCGC	4 cut(s)	54, 189, 623, 945
SspI	AATATT	1 cut(s)	692
SspMI	CTAG	2 cut(s)	978, 993
StyD4I	CCNGG	2 cut(s)	999, 1104
TaaI	ACNGT	3 cut(s)	225, 431, 752
TaiI	ACGT	2 cut(s)	327, 638
TaqI	TCGA	2 cut(s)	321, 363
TasI	AATT	5 cut(s)	413, 478, 563, 813, 857
TatI	WGTACW	2 cut(s)	968, 1125
TauI	GCSGC	3 cut(s)	192, 626, 947
TfiI	GAWTC	3 cut(s)	29, 926, 974
Tru1I	TTAA	2 cut(s)	647, 870
Tru9I	TTAA	2 cut(s)	647, 870
TscAI	CASTG	3 cut(s)	286, 434, 454
TseI	GCWGC	5 cut(s)	389, 523, 568, 1072, 1075
TspDTI	ATGAA	4 cut(s)	27, 210, 512, 798
TspRI	CASTG	3 cut(s)	286, 434, 454
XapI	RAATTY	2 cut(s)	413, 857
XceI	RCATGY	2 cut(s)	275, 475
XmiI	GTMKAC	1 cut(s)	468
XspI	CTAG	2 cut(s)	978, 993
ZraI	GACGTC	1 cut(s)	325
Zsp2I	ATGCAT	1 cut(s)	277

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