Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0009690

Physical Location & Seq

Genomic Coordinates Reverse (-)

39629474 .. 39630607

Gene Structure 1134 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00246520.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1134 bp

ATGGATTTGAATGAAAACGGGAGTTATGATTCTGACCAGACTATATACTACTCCGCTGACTCCGGCATGAGTGATGATGAGATAGGGTCTGACATGGGATTTGAGGATGATGAAGCTTACGAGGTAGGTTCTGACATGAGTATTACTGATGGGGATGGTGAGATAGAGCACTCTGAGCCCAGTTATGGCGGCCATGAATATGATGATTTTGTTGGCACGACACCGTTTTGGCATAGGTATCATTGTTATCCTGCATCTAAAACTGAAAAGCATGCATACACTGAGAGTAGTGATAAAATCATAATGCCACCCTCAGCCCTCGACGTCCTTTCTTCTCTAAACATTGGTTATCCAATGTTGTTTGAGTTCCGGCCATATTCTTTTGATGCTGCCGAGAATAATGAGGCTGAGAAACTTCGTGTCTCTCATTGTGGGGTTTGGGAGTTCACTGCAGAAGAAGGCTTTGTCTACATGCCTAATTGGATGATGGAAAATATGAACTTGAAAGAGGGAGACCTTGTGCTGCTTCGAAACCAGACTCTTCCGAAAGGCAGTCATGTCAAATTGCAGCCTCATACAAAGGACTTCTTGGACATCCCTGACCCAAAAGCTATGTTGGAGGCGGCTCTCGGGACGTTTTCTTGTTTAACAACTGGGGATACTATTGTGCTACCGTATGAGAACAAGAAGTATTATATGGATATCATTGAAACAAAGCCTTCTGATGCCATAGGCATTATTGACACAGACTGTGAGGTTGACTTTGCACCTCCTCTTGACTATAAGGAACCTGAGAAACCTGCTGCTTCATCAATTCCTCTGAACAAGGATGGCCAAGTTGACGAACCTAAATTCAGCCCTTTTAAGGGAACTGGGAGGCGTTTGGATGGCAAGCCTTTGCAGTATGAGTCAGCATTAGATTCTTCCTCATTTGTTGCCACGAATGGTAATCCACAACCTTGTACAGAATCTAGTTCACGAGCTACTAAACGCCGGGCTCAGGGGAAGCTTGTTTTTGGCGCAAATACTGCTCCAAAGGTAGCCTCAAAAGAGGTCAAACAACAGCAGCAGCTCCAAGAGAAAGAAGAGCCAAAGTTCCTGGCCTTTACTGGGAAAATGTACTCCCTAACTTGA

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

377

Amino Acids

42.09

Weight (kDa)

4.55

Isoelectric Point (pI)

51.46

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	78 - 182	4.4e-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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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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
Acc36I	ACCTGC	1 cut(s)	808
AccI	GTMKAC	1 cut(s)	468
AciI	CCGC	3 cut(s)	54, 189, 623
AcoI	YGGCCR	3 cut(s)	190, 371, 832
AcsI	RAATTY	1 cut(s)	851
AcyI	GRCGYC	1 cut(s)	324
AfaI	GTAC	2 cut(s)	964, 1121
AfiI	CCNNNNNNNGG	5 cut(s)	185, 865, 866, 1000, 1110
AgsI	TTSAA	3 cut(s)	10, 505, 710
AjnI	CCWGG	1 cut(s)	1098
AluBI	AGCT	5 cut(s)	116, 611, 983, 1009, 1072
AluI	AGCT	5 cut(s)	116, 611, 983, 1009, 1072
Alw21I	GWGCWC	1 cut(s)	171
Alw26I	GTCTC	2 cut(s)	427, 507
Ama87I	CYCGRG	1 cut(s)	629
AoxI	GGCC	4 cut(s)	190, 371, 832, 1101
ApeKI	GCWGC	6 cut(s)	389, 523, 568, 803, 1066, 1069
ApoI	RAATTY	1 cut(s)	851
ArsI	GACNNNNNNTTYG	2 cut(s)	83, 115
AspLEI	GCGC	1 cut(s)	1022
AsuC2I	CCSGG	1 cut(s)	995
AsuHPI	GGTGA	1 cut(s)	170
AsuII	TTCGAA	1 cut(s)	529
AvaI	CYCGRG	1 cut(s)	629
BaeI	ACNNNNGTAYC	2 cut(s)	651, 684
BalI	TGGCCA	1 cut(s)	834
BanII	GRGCYC	2 cut(s)	180, 1000
BauI	CACGAG	1 cut(s)	978
Bbv12I	GWGCWC	1 cut(s)	171
BbvCI	CCTCAGC	1 cut(s)	313
BbvI	GCAGC	6 cut(s)	376, 510, 580, 790, 1078, 1081
BccI	CCATC	5 cut(s)	143, 149, 481, 824, 881
BciT130I	CCWGG	1 cut(s)	1100
BciVI	GTATCC	1 cut(s)	652
BcnI	CCSGG	1 cut(s)	995
BcoDI	GTCTC	2 cut(s)	427, 507
BfaI	CTAG	1 cut(s)	972
BfmI	CTRYAG	1 cut(s)	450
BfuAI	ACCTGC	1 cut(s)	808
BfuI	GTATCC	1 cut(s)	652
BisI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 804, 1067, 1070
BlsI	GCNGC	8 cut(s)	191, 391, 525, 570, 625, 805, 1068, 1071
Bme1390I	CCNGG	2 cut(s)	995, 1100
BmeT110I	CYCGRG	1 cut(s)	629
BmiI	GGNNCC	1 cut(s)	789
BmrFI	CCNGG	2 cut(s)	995, 1100
BmrI	ACTGGG	4 cut(s)	174, 663, 882, 1119
BmsI	GCATC	3 cut(s)	263, 376, 715
BmuI	ACTGGG	4 cut(s)	174, 663, 882, 1119
Bpu10I	CCTNAGC	2 cut(s)	313, 999
Bpu14I	TTCGAA	1 cut(s)	529
BpuMI	CCSGG	1 cut(s)	995
BsaHI	GRCGYC	1 cut(s)	324
BsaI	GGTCTC	1 cut(s)	507
BsaXI	ACNNNNNCTCC	2 cut(s)	504, 534
Bsc4I	CCNNNNNNNGG	5 cut(s)	185, 865, 866, 1000, 1110
Bse1I	ACTGG	4 cut(s)	180, 658, 877, 1114
BseBI	CCWGG	1 cut(s)	1100
BseGI	GGATG	6 cut(s)	112, 160, 489, 594, 835, 892
BseLI	CCNNNNNNNGG	5 cut(s)	185, 865, 866, 1000, 1110
BseMII	CTCAG	6 cut(s)	165, 273, 327, 399, 783, 1013
BseNI	ACTGG	4 cut(s)	180, 658, 877, 1114
BseRI	GAGGAG	1 cut(s)	762
BseXI	GCAGC	6 cut(s)	376, 510, 580, 790, 1078, 1081
BshFI	GGCC	4 cut(s)	192, 373, 834, 1103
BsiHKAI	GWGCWC	1 cut(s)	171
BsiHKCI	CYCGRG	1 cut(s)	629
BsiSI	CCGG	3 cut(s)	63, 370, 994
BslFI	GGGAC	1 cut(s)	646
BslI	CCNNNNNNNGG	5 cut(s)	185, 865, 866, 1000, 1110
BsmAI	GTCTC	2 cut(s)	427, 507
BsmFI	GGGAC	1 cut(s)	646
BsnI	GGCC	4 cut(s)	192, 373, 834, 1103
Bso31I	GGTCTC	1 cut(s)	507
BsoBI	CYCGRG	1 cut(s)	629
Bsp119I	TTCGAA	1 cut(s)	529
Bsp1286I	GDGCHC	3 cut(s)	171, 180, 1000
Bsp1407I	TGTACA	1 cut(s)	962
BspACI	CCGC	3 cut(s)	54, 189, 623
BspANI	GGCC	4 cut(s)	192, 373, 834, 1103
BspCNI	CTCAG	6 cut(s)	166, 274, 326, 400, 784, 1012
BspLI	GGNNCC	1 cut(s)	789
BspMAI	CTGCAG	1 cut(s)	454
BspMI	ACCTGC	1 cut(s)	808
BspQI	GCTCTTC	1 cut(s)	1080
BspT104I	TTCGAA	1 cut(s)	529
BspTNI	GGTCTC	1 cut(s)	507
BsrGI	TGTACA	1 cut(s)	962
BsrI	ACTGG	4 cut(s)	180, 658, 877, 1114
BssNI	GRCGYC	1 cut(s)	324
BssSI	CACGAG	1 cut(s)	978
Bst2BI	CACGAG	1 cut(s)	978
Bst2UI	CCWGG	1 cut(s)	1100
Bst4CI	ACNGT	3 cut(s)	225, 675, 752
Bst6I	CTCTTC	2 cut(s)	546, 1080
BstACI	GRCGYC	1 cut(s)	324
BstAPI	GCANNNNNTGC	1 cut(s)	1028
BstAUI	TGTACA	1 cut(s)	962
BstBI	TTCGAA	1 cut(s)	529
BstC8I	GCNNGC	2 cut(s)	273, 893
BstDEI	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 999
BstF5I	GGATG	6 cut(s)	112, 160, 489, 594, 835, 892
BstHHI	GCGC	1 cut(s)	1022
BstMAI	GTCTC	2 cut(s)	427, 507
BstMWI	GCNNNNNNNGC	2 cut(s)	175, 1028
BstNI	CCWGG	1 cut(s)	1100
BstNSI	RCATGY	2 cut(s)	275, 475
BstSCI	CCNGG	2 cut(s)	993, 1098
BstSFI	CTRYAG	1 cut(s)	450
BstV1I	GCAGC	6 cut(s)	376, 510, 580, 790, 1078, 1081
BsuI	GTATCC	1 cut(s)	652
BsuRI	GGCC	4 cut(s)	192, 373, 834, 1103
BtsCI	GGATG	6 cut(s)	112, 160, 489, 594, 835, 892
BtsI	GCAGTG	1 cut(s)	447
BtsIMutI	CAGTG	2 cut(s)	279, 447
BveI	ACCTGC	1 cut(s)	808
Cac8I	GCNNGC	2 cut(s)	273, 893
CfoI	GCGC	1 cut(s)	1022
Csp6I	GTAC	2 cut(s)	963, 1120
CviAII	CATG	7 cut(s)	67, 94, 136, 194, 272, 472, 557
CviQI	GTAC	2 cut(s)	963, 1120
DdeI	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 999
EaeI	YGGCCR	3 cut(s)	190, 371, 832
Eam1104I	CTCTTC	2 cut(s)	546, 1080
EarI	CTCTTC	2 cut(s)	546, 1080
Eco24I	GRGCYC	2 cut(s)	180, 1000
Eco31I	GGTCTC	1 cut(s)	507
Eco32I	GATATC	1 cut(s)	703
Eco88I	CYCGRG	1 cut(s)	629
EcoRII	CCWGG	1 cut(s)	1098
EcoRV	GATATC	1 cut(s)	703
EcoT22I	ATGCAT	1 cut(s)	277
EcoT38I	GRGCYC	2 cut(s)	180, 1000
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, 804, 1067, 1070
FokI	GGATG	6 cut(s)	119, 167, 496, 581, 842, 899
FriOI	GRGCYC	2 cut(s)	180, 1000
Fsp4HI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 804, 1067, 1070
FspBI	CTAG	1 cut(s)	972
GlaI	GCGC	1 cut(s)	1021
GluI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 804, 1067, 1070
HaeIII	GGCC	4 cut(s)	192, 373, 834, 1103
HapII	CCGG	3 cut(s)	63, 370, 994
HhaI	GCGC	1 cut(s)	1022
Hin1I	GRCGYC	1 cut(s)	324
Hin1II	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
Hin6I	GCGC	1 cut(s)	1020
HinP1I	GCGC	1 cut(s)	1020
HincII	GTYRAC	2 cut(s)	760, 841
HindII	GTYRAC	2 cut(s)	760, 841
HindIII	AAGCTT	2 cut(s)	114, 1007
HinfI	GANTC	6 cut(s)	29, 59, 538, 908, 920, 968
HpaII	CCGG	3 cut(s)	63, 370, 994
HphI	GGTGA	1 cut(s)	170
Hpy166II	GTNNAC	5 cut(s)	447, 469, 760, 841, 977
Hpy188I	TCNGA	7 cut(s)	34, 91, 133, 175, 546, 724, 822
Hpy188III	TCNNGA	3 cut(s)	631, 776, 978
Hpy8I	GTNNAC	5 cut(s)	447, 469, 760, 841, 977
Hpy99I	CGWCG	1 cut(s)	326
HpyAV	CCTTC	2 cut(s)	452, 729
HpyCH4III	ACNGT	3 cut(s)	225, 675, 752
HpyCH4IV	ACGT	2 cut(s)	324, 635
HpyCH4V	TGCA	6 cut(s)	254, 275, 452, 568, 767, 901
HpyF10VI	GCNNNNNNNGC	2 cut(s)	175, 1028
HpyF3I	CTNAG	6 cut(s)	174, 282, 313, 408, 792, 999
HpySE526I	ACGT	2 cut(s)	324, 635
Hsp92I	GRCGYC	1 cut(s)	324
Hsp92II	CATG	7 cut(s)	70, 97, 139, 197, 275, 475, 560
HspAI	GCGC	1 cut(s)	1020
LguI	GCTCTTC	1 cut(s)	1080
LmnI	GCTCC	2 cut(s)	1036, 1077
Lsp1109I	GCAGC	6 cut(s)	376, 510, 580, 790, 1078, 1081
LweI	GCATC	3 cut(s)	263, 376, 715
MaeI	CTAG	1 cut(s)	972
MaeII	ACGT	2 cut(s)	324, 635
MboII	GAAGA	5 cut(s)	324, 467, 533, 915, 1097
MhlI	GDGCHC	3 cut(s)	171, 180, 1000
MlsI	TGGCCA	1 cut(s)	834
MluCI	AATT	4 cut(s)	478, 563, 813, 851
MluNI	TGGCCA	1 cut(s)	834
MlyI	GAGTC	3 cut(s)	53, 532, 917
MmeI	TCCRAC	1 cut(s)	597
Mox20I	TGGCCA	1 cut(s)	834
Mph1103I	ATGCAT	1 cut(s)	277
MscI	TGGCCA	1 cut(s)	834
MseI	TTAA	2 cut(s)	647, 864
MslI	CAYNNNNRTG	1 cut(s)	198
Msp20I	TGGCCA	1 cut(s)	834
MspA1I	CMGCKG	1 cut(s)	56
MspI	CCGG	3 cut(s)	63, 370, 994
MspR9I	CCNGG	2 cut(s)	995, 1100
MvaI	CCWGG	1 cut(s)	1100
MwoI	GCNNNNNNNGC	2 cut(s)	175, 1028
NciI	CCSGG	1 cut(s)	995
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
NspV	TTCGAA	1 cut(s)	529
PaeI	GCATGC	1 cut(s)	275
PciSI	GCTCTTC	1 cut(s)	1080
PfeI	GAWTC	3 cut(s)	29, 920, 968
PkrI	GCNGC	8 cut(s)	191, 391, 525, 570, 625, 805, 1068, 1071
PleI	GAGTC	3 cut(s)	53, 532, 916
PpsI	GAGTC	3 cut(s)	53, 532, 916
Psp6I	CCWGG	1 cut(s)	1098
PspGI	CCWGG	1 cut(s)	1098
PspN4I	GGNNCC	1 cut(s)	789
PstI	CTGCAG	1 cut(s)	454
RsaI	GTAC	2 cut(s)	964, 1121
RsaNI	GTAC	2 cut(s)	963, 1120
RseI	CAYNNNNRTG	1 cut(s)	198
SapI	GCTCTTC	1 cut(s)	1080
SaqAI	TTAA	2 cut(s)	647, 864
SatI	GCNGC	8 cut(s)	190, 390, 524, 569, 624, 804, 1067, 1070
SchI	GAGTC	3 cut(s)	53, 532, 917
ScrFI	CCNGG	2 cut(s)	995, 1100
SduI	GDGCHC	3 cut(s)	171, 180, 1000
SfaNI	GCATC	3 cut(s)	263, 376, 715
SfcI	CTRYAG	1 cut(s)	450
SfuI	TTCGAA	1 cut(s)	529
SmiMI	CAYNNNNRTG	1 cut(s)	198
SphI	GCATGC	1 cut(s)	275
Sse9I	AATT	4 cut(s)	478, 563, 813, 851
SsiI	CCGC	3 cut(s)	54, 189, 623
SspMI	CTAG	1 cut(s)	972
StyD4I	CCNGG	2 cut(s)	993, 1098
TaaI	ACNGT	3 cut(s)	225, 675, 752
TaiI	ACGT	2 cut(s)	327, 638
TaqI	TCGA	2 cut(s)	321, 529
TasI	AATT	4 cut(s)	478, 563, 813, 851
TatI	WGTACW	2 cut(s)	962, 1119
TauI	GCSGC	2 cut(s)	192, 626
TfiI	GAWTC	3 cut(s)	29, 920, 968
Tru1I	TTAA	2 cut(s)	647, 864
Tru9I	TTAA	2 cut(s)	647, 864
TscAI	CASTG	2 cut(s)	286, 454
TseI	GCWGC	6 cut(s)	389, 523, 568, 803, 1066, 1069
TspDTI	ATGAA	5 cut(s)	27, 126, 210, 512, 798
TspRI	CASTG	2 cut(s)	286, 454
XapI	RAATTY	1 cut(s)	851
XceI	RCATGY	2 cut(s)	275, 475
XmiI	GTMKAC	1 cut(s)	468
XspI	CTAG	1 cut(s)	972
ZraI	GACGTC	1 cut(s)	325
Zsp2I	ATGCAT	1 cut(s)	277

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