Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0009690

Physical Location & Seq

Genomic Coordinates Reverse (-)

40860544 .. 40861689

Gene Structure 1146 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002866

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1146 bp

ATGGATTTGAATGAAAACGGGAGTTGTTATGATTCTGACCAGACTACATACTACTCCGCTGACTCCGGCATGAGTGATGATGATGAGATAGGGTCTGACATGGGATTTGAGGATGATGAAGCTTACGAGGTAGGTTCTGACATGAGTATTACTGATGGGGATGGCGAGATAGAGCACTCTGAGCCCAGTTATGGCGGCCATGAATATGATGATTTTGTTGGCACGACACCGTTTTGGCATAGGTATCATTGTTATCCGGCATCTAAAACTGAAAAGCATGCATACACTGAGAGTAGTGATAAAATCATAATGCCTCCCTCAGCCCTCGACGTCCTTTCTTCTCTAAACATTGGTTATCCAATGTTGTTCGAGTTCCGGCCATATTCTTTTGATGCTGCCGAGAAGAATGAGACTGAGAAATTTCGTGTCTCTCATTGTGGGGTTTGGGAGTTCACTGCAGAAGAAGGCTTTGTCTACATGCCTAATTGGATGATGGAAAATATGAACTTGAAAGAGGGAGACCTTGTGCTGTTTCAAAACCGGACTCTTCCGAAAGGCAGTCATGTCAAATTGCAGCCTCATACCAAGGATTTCTTGGACATCCATGACCCAAAAGCTATGCTGGAGGCGGCTCTCGGGACGTTTTCTTGTTTAACAACTGGGGATACTATTGTGCTACCTTATGAGAACAAGAAGTATTATATGGATATCATTGAAACAAAGCCTTCTGATGCCATAGGCATTATTGACACAGACTGTGAGGTTGACTTTGCACCTCCTCTTGACTATAAGGAACCTGAGAAACCTGTTGCTTCATCAATTCCTCTGAACAAGGAGGCAGATGGCCAAGTTGACAAACCCAAATTCAGCCCTTTTAAGGGAACTGGGAGGCGTTTGGATGGCAAGCCTTTGCAGTATGAGTCAGCATTAGATTCTTCCTCATTTGTTGCCGCGAATGGTAATCCACATCCTTGTACAGAATCTAGTTCACGAGCTACTAGACGCCGGGCTCAGGGGAAGCTTGTTTTTGGCGCAGATACTGCTCCAAAGGTAGCCTCAAAAGAGGTCAAACAACAGCAGCAGCTCCAAGAGAAAGAAGAGCCAAAGTTCCTGGCTTTTACTGGGAAAATGTACTCCCTAGCCTAA

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

382

Amino Acids

42.65

Weight (kDa)

4.63

Isoelectric Point (pI)

50.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	80 - 184	7.2e-30	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	185 - 260	1.6e-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)	333
AccI	GTMKAC	1 cut(s)	474
AccII	CGCG	1 cut(s)	953
AciI	CCGC	4 cut(s)	57, 195, 629, 951
AcoI	YGGCCR	3 cut(s)	196, 377, 844
AcsI	RAATTY	2 cut(s)	419, 863
AcyI	GRCGYC	2 cut(s)	330, 1003
AfaI	GTAC	2 cut(s)	976, 1133
AfiI	CCNNNNNNNGG	4 cut(s)	191, 877, 878, 1012
AgsI	TTSAA	4 cut(s)	10, 511, 536, 716
AjnI	CCWGG	1 cut(s)	1110
AluBI	AGCT	5 cut(s)	122, 617, 995, 1021, 1084
AluI	AGCT	5 cut(s)	122, 617, 995, 1021, 1084
Alw21I	GWGCWC	1 cut(s)	177
Alw26I	GTCTC	3 cut(s)	404, 433, 513
AlwNI	CAGNNNCTG	1 cut(s)	1040
Ama87I	CYCGRG	1 cut(s)	635
AoxI	GGCC	3 cut(s)	196, 377, 844
ApeKI	GCWGC	4 cut(s)	395, 574, 1078, 1081
ApoI	RAATTY	2 cut(s)	419, 863
ArsI	GACNNNNNNTTYG	2 cut(s)	89, 121
AspLEI	GCGC	1 cut(s)	1034
AsuC2I	CCSGG	1 cut(s)	1007
AvaI	CYCGRG	1 cut(s)	635
BaeI	ACNNNNGTAYC	2 cut(s)	657, 690
BalI	TGGCCA	1 cut(s)	846
BanII	GRGCYC	2 cut(s)	186, 1012
BauI	CACGAG	1 cut(s)	990
Bbv12I	GWGCWC	1 cut(s)	177
BbvCI	CCTCAGC	1 cut(s)	319
BbvI	GCAGC	4 cut(s)	382, 586, 1090, 1093
BccI	CCATC	5 cut(s)	149, 155, 487, 836, 893
BciT130I	CCWGG	1 cut(s)	1112
BciVI	GTATCC	1 cut(s)	658
BcnI	CCSGG	1 cut(s)	1007
BcoDI	GTCTC	3 cut(s)	404, 433, 513
BfaI	CTAG	3 cut(s)	984, 999, 1139
BfmI	CTRYAG	1 cut(s)	456
BfuI	GTATCC	1 cut(s)	658
BisI	GCNGC	7 cut(s)	196, 396, 575, 630, 951, 1079, 1082
BlsI	GCNGC	7 cut(s)	197, 397, 576, 631, 952, 1080, 1083
Bme1390I	CCNGG	2 cut(s)	1007, 1112
BmeT110I	CYCGRG	1 cut(s)	635
BmiI	GGNNCC	1 cut(s)	795
BmrFI	CCNGG	2 cut(s)	1007, 1112
BmrI	ACTGGG	4 cut(s)	180, 669, 894, 1131
BmsI	GCATC	3 cut(s)	269, 382, 721
BmuI	ACTGGG	4 cut(s)	180, 669, 894, 1131
BpmI	CTGGAG	1 cut(s)	644
Bpu10I	CCTNAGC	2 cut(s)	319, 1011
BpuMI	CCSGG	1 cut(s)	1007
BsaHI	GRCGYC	2 cut(s)	330, 1003
BsaI	GGTCTC	1 cut(s)	513
BsaJI	CCNNGG	1 cut(s)	585
BsaWI	WCCGGW	1 cut(s)	540
BsaXI	ACNNNNNCTCC	2 cut(s)	510, 540
Bsc4I	CCNNNNNNNGG	4 cut(s)	191, 877, 878, 1012
Bse1I	ACTGG	4 cut(s)	186, 664, 889, 1126
BseBI	CCWGG	1 cut(s)	1112
BseDI	CCNNGG	1 cut(s)	585
BseGI	GGATG	6 cut(s)	118, 166, 495, 600, 904, 967
BseLI	CCNNNNNNNGG	4 cut(s)	191, 877, 878, 1012
BseMII	CTCAG	6 cut(s)	171, 279, 333, 405, 789, 1025
BseNI	ACTGG	4 cut(s)	186, 664, 889, 1126
BseRI	GAGGAG	1 cut(s)	768
BseXI	GCAGC	4 cut(s)	382, 586, 1090, 1093
Bsh1236I	CGCG	1 cut(s)	953
BshFI	GGCC	3 cut(s)	198, 379, 846
BsiHKAI	GWGCWC	1 cut(s)	177
BsiHKCI	CYCGRG	1 cut(s)	635
BsiSI	CCGG	5 cut(s)	66, 257, 376, 541, 1006
BslFI	GGGAC	1 cut(s)	652
BslI	CCNNNNNNNGG	4 cut(s)	191, 877, 878, 1012
BsmAI	GTCTC	3 cut(s)	404, 433, 513
BsmFI	GGGAC	1 cut(s)	652
BsnI	GGCC	3 cut(s)	198, 379, 846
Bso31I	GGTCTC	1 cut(s)	513
BsoBI	CYCGRG	1 cut(s)	635
Bsp1286I	GDGCHC	3 cut(s)	177, 186, 1012
Bsp1407I	TGTACA	1 cut(s)	974
BspACI	CCGC	4 cut(s)	57, 195, 629, 951
BspANI	GGCC	3 cut(s)	198, 379, 846
BspCNI	CTCAG	6 cut(s)	172, 280, 332, 406, 790, 1024
BspFNI	CGCG	1 cut(s)	953
BspLI	GGNNCC	1 cut(s)	795
BspMAI	CTGCAG	1 cut(s)	460
BspQI	GCTCTTC	1 cut(s)	1092
BspTNI	GGTCTC	1 cut(s)	513
BsrGI	TGTACA	1 cut(s)	974
BsrI	ACTGG	4 cut(s)	186, 664, 889, 1126
BssECI	CCNNGG	1 cut(s)	585
BssNI	GRCGYC	2 cut(s)	330, 1003
BssSI	CACGAG	1 cut(s)	990
BssT1I	CCWWGG	1 cut(s)	585
Bst2BI	CACGAG	1 cut(s)	990
Bst2UI	CCWGG	1 cut(s)	1112
Bst4CI	ACNGT	2 cut(s)	231, 758
Bst6I	CTCTTC	2 cut(s)	552, 1092
BstACI	GRCGYC	2 cut(s)	330, 1003
BstAPI	GCANNNNNTGC	1 cut(s)	1040
BstAUI	TGTACA	1 cut(s)	974
BstC8I	GCNNGC	2 cut(s)	279, 905
BstDEI	CTNAG	6 cut(s)	180, 288, 319, 414, 798, 1011
BstF5I	GGATG	6 cut(s)	118, 166, 495, 600, 904, 967
BstFNI	CGCG	1 cut(s)	953
BstHHI	GCGC	1 cut(s)	1034
BstMAI	GTCTC	3 cut(s)	404, 433, 513
BstMWI	GCNNNNNNNGC	2 cut(s)	181, 1040
BstNI	CCWGG	1 cut(s)	1112
BstNSI	RCATGY	2 cut(s)	281, 481
BstSCI	CCNGG	2 cut(s)	1005, 1110
BstSFI	CTRYAG	1 cut(s)	456
BstUI	CGCG	1 cut(s)	953
BstV1I	GCAGC	4 cut(s)	382, 586, 1090, 1093
BsuI	GTATCC	1 cut(s)	658
BsuRI	GGCC	3 cut(s)	198, 379, 846
BtsCI	GGATG	6 cut(s)	118, 166, 495, 600, 904, 967
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	2 cut(s)	285, 453
Cac8I	GCNNGC	2 cut(s)	279, 905
CaiI	CAGNNNCTG	1 cut(s)	1040
CfoI	GCGC	1 cut(s)	1034
CseI	GACGC	1 cut(s)	1011
Csp6I	GTAC	2 cut(s)	975, 1132
CviAII	CATG	8 cut(s)	70, 100, 142, 200, 278, 478, 563, 605
CviQI	GTAC	2 cut(s)	975, 1132
DdeI	CTNAG	6 cut(s)	180, 288, 319, 414, 798, 1011
EaeI	YGGCCR	3 cut(s)	196, 377, 844
Eam1104I	CTCTTC	2 cut(s)	552, 1092
EarI	CTCTTC	2 cut(s)	552, 1092
Eco130I	CCWWGG	1 cut(s)	585
Eco24I	GRGCYC	2 cut(s)	186, 1012
Eco31I	GGTCTC	1 cut(s)	513
Eco32I	GATATC	1 cut(s)	709
Eco88I	CYCGRG	1 cut(s)	635
EcoRII	CCWGG	1 cut(s)	1110
EcoRV	GATATC	1 cut(s)	709
EcoT14I	CCWWGG	1 cut(s)	585
EcoT22I	ATGCAT	1 cut(s)	283
EcoT38I	GRGCYC	2 cut(s)	186, 1012
ErhI	CCWWGG	1 cut(s)	585
FaeI	CATG	8 cut(s)	73, 103, 145, 203, 281, 481, 566, 608
FalI	AAGNNNNNCTT	2 cut(s)	578, 610
FaqI	GGGAC	1 cut(s)	652
FatI	CATG	8 cut(s)	69, 99, 141, 199, 277, 477, 562, 604
FblI	GTMKAC	1 cut(s)	474
Fnu4HI	GCNGC	7 cut(s)	196, 396, 575, 630, 951, 1079, 1082
FokI	GGATG	6 cut(s)	125, 173, 502, 587, 911, 954
FriOI	GRGCYC	2 cut(s)	186, 1012
Fsp4HI	GCNGC	7 cut(s)	196, 396, 575, 630, 951, 1079, 1082
FspBI	CTAG	3 cut(s)	984, 999, 1139
GlaI	GCGC	1 cut(s)	1033
GluI	GCNGC	7 cut(s)	196, 396, 575, 630, 951, 1079, 1082
GsuI	CTGGAG	1 cut(s)	644
HaeIII	GGCC	3 cut(s)	198, 379, 846
HapII	CCGG	5 cut(s)	66, 257, 376, 541, 1006
HgaI	GACGC	1 cut(s)	1011
HhaI	GCGC	1 cut(s)	1034
Hin1I	GRCGYC	2 cut(s)	330, 1003
Hin1II	CATG	8 cut(s)	73, 103, 145, 203, 281, 481, 566, 608
Hin6I	GCGC	1 cut(s)	1032
HinP1I	GCGC	1 cut(s)	1032
HincII	GTYRAC	2 cut(s)	766, 853
HindII	GTYRAC	2 cut(s)	766, 853
HindIII	AAGCTT	2 cut(s)	120, 1019
HinfI	GANTC	6 cut(s)	32, 62, 544, 920, 932, 980
HpaII	CCGG	5 cut(s)	66, 257, 376, 541, 1006
Hpy166II	GTNNAC	5 cut(s)	453, 475, 766, 853, 989
Hpy188I	TCNGA	7 cut(s)	37, 97, 139, 181, 552, 730, 828
Hpy188III	TCNNGA	3 cut(s)	637, 782, 990
Hpy8I	GTNNAC	5 cut(s)	453, 475, 766, 853, 989
Hpy99I	CGWCG	1 cut(s)	332
HpyAV	CCTTC	2 cut(s)	458, 735
HpyCH4III	ACNGT	2 cut(s)	231, 758
HpyCH4IV	ACGT	2 cut(s)	330, 641
HpyCH4V	TGCA	5 cut(s)	281, 458, 574, 773, 913
HpyF10VI	GCNNNNNNNGC	2 cut(s)	181, 1040
HpyF3I	CTNAG	6 cut(s)	180, 288, 319, 414, 798, 1011
HpySE526I	ACGT	2 cut(s)	330, 641
Hsp92I	GRCGYC	2 cut(s)	330, 1003
Hsp92II	CATG	8 cut(s)	73, 103, 145, 203, 281, 481, 566, 608
HspAI	GCGC	1 cut(s)	1032
LguI	GCTCTTC	1 cut(s)	1092
LmnI	GCTCC	2 cut(s)	1048, 1089
Lsp1109I	GCAGC	4 cut(s)	382, 586, 1090, 1093
LweI	GCATC	3 cut(s)	269, 382, 721
MaeI	CTAG	3 cut(s)	984, 999, 1139
MaeII	ACGT	2 cut(s)	330, 641
MboII	GAAGA	6 cut(s)	330, 415, 473, 539, 927, 1109
MhlI	GDGCHC	3 cut(s)	177, 186, 1012
MlsI	TGGCCA	1 cut(s)	846
MluCI	AATT	5 cut(s)	419, 484, 569, 819, 863
MluNI	TGGCCA	1 cut(s)	846
MlyI	GAGTC	3 cut(s)	56, 538, 929
Mox20I	TGGCCA	1 cut(s)	846
Mph1103I	ATGCAT	1 cut(s)	283
MscI	TGGCCA	1 cut(s)	846
MseI	TTAA	2 cut(s)	653, 876
MslI	CAYNNNNRTG	1 cut(s)	204
Msp20I	TGGCCA	1 cut(s)	846
MspA1I	CMGCKG	1 cut(s)	59
MspI	CCGG	5 cut(s)	66, 257, 376, 541, 1006
MspR9I	CCNGG	2 cut(s)	1007, 1112
MvaI	CCWGG	1 cut(s)	1112
MvnI	CGCG	1 cut(s)	953
MwoI	GCNNNNNNNGC	2 cut(s)	181, 1040
NciI	CCSGG	1 cut(s)	1007
NlaIII	CATG	8 cut(s)	73, 103, 145, 203, 281, 481, 566, 608
NlaIV	GGNNCC	1 cut(s)	795
NmeAIII	GCCGAG	1 cut(s)	424
NsiI	ATGCAT	1 cut(s)	283
NspI	RCATGY	2 cut(s)	281, 481
PaeI	GCATGC	1 cut(s)	281
PciSI	GCTCTTC	1 cut(s)	1092
PfeI	GAWTC	3 cut(s)	32, 932, 980
PkrI	GCNGC	7 cut(s)	197, 397, 576, 631, 952, 1080, 1083
PleI	GAGTC	3 cut(s)	56, 538, 928
PpsI	GAGTC	3 cut(s)	56, 538, 928
Psp6I	CCWGG	1 cut(s)	1110
PspGI	CCWGG	1 cut(s)	1110
PspN4I	GGNNCC	1 cut(s)	795
PstI	CTGCAG	1 cut(s)	460
PstNI	CAGNNNCTG	1 cut(s)	1040
RsaI	GTAC	2 cut(s)	976, 1133
RsaNI	GTAC	2 cut(s)	975, 1132
RseI	CAYNNNNRTG	1 cut(s)	204
SapI	GCTCTTC	1 cut(s)	1092
SaqAI	TTAA	2 cut(s)	653, 876
SatI	GCNGC	7 cut(s)	196, 396, 575, 630, 951, 1079, 1082
SchI	GAGTC	3 cut(s)	56, 538, 929
ScrFI	CCNGG	2 cut(s)	1007, 1112
SduI	GDGCHC	3 cut(s)	177, 186, 1012
SfaNI	GCATC	3 cut(s)	269, 382, 721
SfcI	CTRYAG	1 cut(s)	456
SmiMI	CAYNNNNRTG	1 cut(s)	204
SphI	GCATGC	1 cut(s)	281
Sse9I	AATT	5 cut(s)	419, 484, 569, 819, 863
SsiI	CCGC	4 cut(s)	57, 195, 629, 951
SspMI	CTAG	3 cut(s)	984, 999, 1139
StyD4I	CCNGG	2 cut(s)	1005, 1110
StyI	CCWWGG	1 cut(s)	585
TaaI	ACNGT	2 cut(s)	231, 758
TaiI	ACGT	2 cut(s)	333, 644
TaqI	TCGA	2 cut(s)	327, 369
TasI	AATT	5 cut(s)	419, 484, 569, 819, 863
TatI	WGTACW	2 cut(s)	974, 1131
TauI	GCSGC	3 cut(s)	198, 632, 953
TfiI	GAWTC	3 cut(s)	32, 932, 980
Tru1I	TTAA	2 cut(s)	653, 876
Tru9I	TTAA	2 cut(s)	653, 876
TscAI	CASTG	2 cut(s)	292, 460
TseI	GCWGC	4 cut(s)	395, 574, 1078, 1081
TspDTI	ATGAA	5 cut(s)	27, 132, 216, 518, 804
TspRI	CASTG	2 cut(s)	292, 460
XapI	RAATTY	2 cut(s)	419, 863
XceI	RCATGY	2 cut(s)	281, 481
XcmI	CCANNNNNNNNNTGG	1 cut(s)	592
XmiI	GTMKAC	1 cut(s)	474
XspI	CTAG	3 cut(s)	984, 999, 1139
ZraI	GACGTC	1 cut(s)	331
Zsp2I	ATGCAT	1 cut(s)	283

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