Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0017672

Physical Location & Seq

Genomic Coordinates Forward (+)

40423770 .. 40424792

Gene Structure 1023 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002833

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGGCTTCTTTAAACATAGATCTGAATTGGGTACGTCAACGGATGATGGAGATTGATATGGAGCGTTGGCCGTCTCTCGATCTAAGCTATCGCTGCTATTCTGCAACTTTCTTGGACAAAAACCAAGCTGCAAAACTCGAAACCGGTGACAAAATCTTTATGCCACCCTCAGCCCTCAGAGTCCTTTTGTCTCGGCCCAGCAGTAACCCGATGCTCTTCCAGCTACGAAACCCTAATGCTGCCGAGCGAGAGTTGGTTTCTCACTGTGGGGTTTTGGAGTTCACTGCATTAGAAGACACCATTTATATGCCTTCCTGGAAGATGAAGAGCCTGGACTTGGAAGCGGGAGACCTTGTTCAAGTCAAGAATGTGACTCTTCCAAAAGGAAAATTCGTTAAATTGCAACCCCACACCAAAAACTTCTTGGACATTGCAAATCCGAGAGCTGTGTTGGAGACATCACTGAGGAGTTTTACATGTTTCACAACTGGTGATACTATTAAGCTGCCTTATAATGGCAAGGAATACTATGTGGATATCGTAGAAACAAAGCCTGGTAAGGCCATAAGTATCGTTGACACAGACTGTGAGGTTGACTTTGCGCCTCCTCACGACTATAAGGAACCCGATATGCCTGTTGCTGCAGCTTCTCCTCCGACAAACAAGGCGGCATTGGTGGCAGCTGATCAGATTGAAGAACCTAAATTCAACCCTTTTCCTGGAGCTGGAAGGCGTTTGGATGGACAACCTTTGTCCGCTCCCCCAGTTTCTTCTTCCTCATTAGTTGCAGCAGCCAATAATGGTAAGGGAAATGCACAGCCATCGAATACAGGATCCAGCTCGCAAGGGACCAGTCGTCGGGCTCAGGGGAAGCTTGTTTTCGGATCAAATGCTGCCAACCGTACTACTACTACTCCAAAGGAAACAGAAAAGGAAGCTTCAAAAGAGCAGGCTAAGCCAGAAAAGAAAGAAGATCCACAGTTCCAGCCCTTTACAGGGAAAAGGTACTCATTAAAGGGTTGA

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

341

Amino Acids

37.43

Weight (kDa)

8.5

Isoelectric Point (pI)

40.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	29 - 127	1.6e-28	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	128 - 203	9.6e-34	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

Tree File

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Orthologous Genes (Group: OG0017672)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g23750 FvH4_5g23750
rosa_chinensis	RchiOBHm_Chr7g0213071
rosa_laevigata	RLG00000002833
rosa_multiflora	Rmu_co8462811.1_g000001 Rmu_sc0001121.1_g000007
rosa_roxburghii	Rroxscaffold_3G00246260
rosa_rugosa	Rorug07G0139300
rosa_samantha	Rh7AG270600 Rh7CG289900 Rh7DG278800
rosa_wichuraiana	Rw7G023510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	513
AccBSI	CCGCTC	1 cut(s)	758
AciI	CCGC	3 cut(s)	344, 668, 756
AclWI	GGATC	4 cut(s)	828, 841, 892, 968
AcoI	YGGCCR	1 cut(s)	68
AcsI	RAATTY	2 cut(s)	389, 704
AfaI	GTAC	3 cut(s)	33, 904, 1007
AfiI	CCNNNNNNNGG	7 cut(s)	337, 515, 719, 725, 858, 995, 996
AflIII	ACRYGT	1 cut(s)	476
AgeI	ACCGGT	1 cut(s)	143
AgsI	TTSAA	4 cut(s)	359, 695, 709, 942
AhdI	GACNNNNNGTC	1 cut(s)	855
AjnI	CCWGG	4 cut(s)	314, 330, 553, 718
AloI	GAACNNNNNNTCC	2 cut(s)	339, 371
Alw26I	GTCTC	4 cut(s)	78, 195, 342, 449
AlwI	GGATC	4 cut(s)	828, 841, 892, 968
AoxI	GGCC	3 cut(s)	68, 194, 561
ApoI	RAATTY	2 cut(s)	389, 704
AsiGI	ACCGGT	1 cut(s)	143
AspLEI	GCGC	1 cut(s)	604
AspS9I	GGNCC	2 cut(s)	195, 849
AsuHPI	GGTGA	2 cut(s)	158, 503
AvaII	GGWCC	1 cut(s)	849
BamHI	GGATCC	1 cut(s)	833
BanII	GRGCYC	1 cut(s)	865
BbsI	GAAGAC	1 cut(s)	300
BbvCI	CCTCAGC	1 cut(s)	169
BccI	CCATC	3 cut(s)	40, 734, 829
BceAI	ACGGC	1 cut(s)	55
BcgI	CGANNNNNNTGC	2 cut(s)	804, 838
BciT130I	CCWGG	4 cut(s)	316, 332, 555, 720
BclI	TGATCA	1 cut(s)	685
BcoDI	GTCTC	4 cut(s)	78, 195, 342, 449
BfmI	CTRYAG	1 cut(s)	642
BglII	AGATCT	1 cut(s)	19
BlpI	GCTNAGC	1 cut(s)	954
Bme1390I	CCNGG	4 cut(s)	316, 332, 555, 720
Bme18I	GGWCC	1 cut(s)	849
BmeRI	GACNNNNNGTC	1 cut(s)	855
BmgT120I	GGNCC	2 cut(s)	195, 849
BmiI	GGNNCC	3 cut(s)	624, 835, 850
BmrFI	CCNGG	4 cut(s)	316, 332, 555, 720
BmrI	ACTGGG	1 cut(s)	758
BmsI	GCATC	1 cut(s)	201
BmuI	ACTGGG	1 cut(s)	758
BpiI	GAAGAC	1 cut(s)	300
BpmI	CTGGAG	1 cut(s)	741
Bpu10I	CCTNAGC	2 cut(s)	169, 864
Bpu1102I	GCTNAGC	1 cut(s)	954
BsaI	GGTCTC	1 cut(s)	342
BsaWI	WCCGGW	1 cut(s)	143
BsaXI	ACNNNNNCTCC	4 cut(s)	339, 369, 898, 928
Bsc4I	CCNNNNNNNGG	7 cut(s)	337, 515, 719, 725, 858, 995, 996
Bse118I	RCCGGY	1 cut(s)	143
Bse1I	ACTGG	3 cut(s)	493, 764, 852
Bse3DI	GCAATG	1 cut(s)	429
BseBI	CCWGG	4 cut(s)	316, 332, 555, 720
BseGI	GGATG	2 cut(s)	48, 745
BseLI	CCNNNNNNNGG	7 cut(s)	337, 515, 719, 725, 858, 995, 996
BseMI	GCAATG	1 cut(s)	429
BseMII	CTCAG	4 cut(s)	183, 190, 455, 878
BseNI	ACTGG	3 cut(s)	493, 764, 852
BseRI	GAGGAG	3 cut(s)	481, 597, 642
BseYI	CCCAGC	1 cut(s)	197
BshFI	GGCC	3 cut(s)	70, 196, 563
BshTI	ACCGGT	1 cut(s)	143
BsiSI	CCGG	1 cut(s)	144
BslFI	GGGAC	1 cut(s)	862
BslI	CCNNNNNNNGG	7 cut(s)	337, 515, 719, 725, 858, 995, 996
BsmAI	GTCTC	4 cut(s)	78, 195, 342, 449
BsmBI	CGTCTC	1 cut(s)	78
BsmFI	GGGAC	1 cut(s)	862
BsnI	GGCC	3 cut(s)	70, 196, 563
Bso31I	GGTCTC	1 cut(s)	342
Bsp1286I	GDGCHC	1 cut(s)	865
Bsp143I	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
Bsp1720I	GCTNAGC	1 cut(s)	954
BspACI	CCGC	3 cut(s)	344, 668, 756
BspANI	GGCC	3 cut(s)	70, 196, 563
BspCNI	CTCAG	4 cut(s)	182, 189, 456, 877
BspLI	GGNNCC	3 cut(s)	624, 835, 850
BspMAI	CTGCAG	1 cut(s)	646
BspPI	GGATC	4 cut(s)	828, 841, 892, 968
BspQI	GCTCTTC	2 cut(s)	221, 320
BspTNI	GGTCTC	1 cut(s)	342
BsrBI	CCGCTC	1 cut(s)	758
BsrDI	GCAATG	1 cut(s)	429
BsrFI	RCCGGY	1 cut(s)	143
BsrI	ACTGG	3 cut(s)	493, 764, 852
BssAI	RCCGGY	1 cut(s)	143
BssMI	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
Bst2UI	CCWGG	4 cut(s)	316, 332, 555, 720
Bst4CI	ACNGT	4 cut(s)	266, 587, 902, 981
Bst6I	CTCTTC	3 cut(s)	221, 320, 381
BstC8I	GCNNGC	2 cut(s)	842, 951
BstDEI	CTNAG	6 cut(s)	83, 169, 176, 464, 864, 954
BstF5I	GGATG	2 cut(s)	48, 745
BstHHI	GCGC	1 cut(s)	604
BstKTI	GATC	6 cut(s)	22, 82, 688, 836, 887, 976
BstMAI	GTCTC	4 cut(s)	78, 195, 342, 449
BstMBI	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
BstMWI	GCNNNNNNNGC	4 cut(s)	93, 220, 677, 955
BstNI	CCWGG	4 cut(s)	316, 332, 555, 720
BstNSI	RCATGY	1 cut(s)	480
BstSCI	CCNGG	4 cut(s)	314, 330, 553, 718
BstSFI	CTRYAG	1 cut(s)	642
BstV2I	GAAGAC	1 cut(s)	300
BstX2I	RGATCY	3 cut(s)	19, 833, 973
BstYI	RGATCY	3 cut(s)	19, 833, 973
BsuRI	GGCC	3 cut(s)	70, 196, 563
BtsCI	GGATG	2 cut(s)	48, 745
BtsI	GCAGTG	1 cut(s)	282
BtsIMutI	CAGTG	3 cut(s)	262, 282, 461
Cac8I	GCNNGC	2 cut(s)	842, 951
CfoI	GCGC	1 cut(s)	604
Cfr10I	RCCGGY	1 cut(s)	143
Cfr13I	GGNCC	2 cut(s)	195, 849
Csp6I	GTAC	3 cut(s)	32, 903, 1006
CspAI	ACCGGT	1 cut(s)	143
CviAII	CATG	1 cut(s)	477
CviQI	GTAC	3 cut(s)	32, 903, 1006
DdeI	CTNAG	6 cut(s)	83, 169, 176, 464, 864, 954
DpnI	GATC	6 cut(s)	21, 81, 687, 835, 886, 975
DpnII	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
DraI	TTTAAA	1 cut(s)	12
DriI	GACNNNNNGTC	1 cut(s)	855
EaeI	YGGCCR	1 cut(s)	68
Eam1104I	CTCTTC	3 cut(s)	221, 320, 381
Eam1105I	GACNNNNNGTC	1 cut(s)	855
EarI	CTCTTC	3 cut(s)	221, 320, 381
Eco24I	GRGCYC	1 cut(s)	865
Eco31I	GGTCTC	1 cut(s)	342
Eco32I	GATATC	1 cut(s)	538
Eco47I	GGWCC	1 cut(s)	849
EcoRII	CCWGG	4 cut(s)	314, 330, 553, 718
EcoRV	GATATC	1 cut(s)	538
EcoT38I	GRGCYC	1 cut(s)	865
Esp3I	CGTCTC	1 cut(s)	78
FaeI	CATG	1 cut(s)	480
FaqI	GGGAC	1 cut(s)	862
FatI	CATG	1 cut(s)	476
FauI	CCCGC	1 cut(s)	337
FbaI	TGATCA	1 cut(s)	685
FokI	GGATG	2 cut(s)	55, 752
FriOI	GRGCYC	1 cut(s)	865
GlaI	GCGC	1 cut(s)	603
GsaI	CCCAGC	1 cut(s)	201
GsuI	CTGGAG	1 cut(s)	741
HaeIII	GGCC	3 cut(s)	70, 196, 563
HapII	CCGG	1 cut(s)	144
HhaI	GCGC	1 cut(s)	604
Hin1II	CATG	1 cut(s)	480
Hin6I	GCGC	1 cut(s)	602
HinP1I	GCGC	1 cut(s)	602
HincII	GTYRAC	3 cut(s)	38, 577, 595
HindII	GTYRAC	3 cut(s)	38, 577, 595
HindIII	AAGCTT	2 cut(s)	872, 936
HinfI	GANTC	2 cut(s)	180, 373
HpaII	CCGG	1 cut(s)	144
HphI	GGTGA	2 cut(s)	158, 503
Hpy166II	GTNNAC	4 cut(s)	38, 282, 577, 595
Hpy188I	TCNGA	6 cut(s)	24, 179, 441, 657, 690, 884
Hpy188III	TCNNGA	3 cut(s)	77, 364, 611
Hpy8I	GTNNAC	4 cut(s)	38, 282, 577, 595
Hpy99I	CGWCG	1 cut(s)	861
HpyAV	CCTTC	2 cut(s)	321, 723
HpyCH4III	ACNGT	4 cut(s)	266, 587, 902, 981
HpyCH4IV	ACGT	1 cut(s)	34
HpyCH4V	TGCA	8 cut(s)	104, 131, 287, 403, 434, 644, 788, 815
HpyF10VI	GCNNNNNNNGC	4 cut(s)	93, 220, 677, 955
HpyF3I	CTNAG	6 cut(s)	83, 169, 176, 464, 864, 954
HpySE526I	ACGT	1 cut(s)	34
Hsp92II	CATG	1 cut(s)	480
HspAI	GCGC	1 cut(s)	602
Ksp22I	TGATCA	1 cut(s)	685
Kzo9I	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
LguI	GCTCTTC	2 cut(s)	221, 320
LmnI	GCTCC	3 cut(s)	61, 722, 763
LweI	GCATC	1 cut(s)	201
MaeII	ACGT	1 cut(s)	34
MaeIII	GTNAC	3 cut(s)	146, 203, 370
MalI	GATC	6 cut(s)	21, 81, 687, 835, 886, 975
MbiI	CCGCTC	1 cut(s)	758
MboI	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
MboII	GAAGA	9 cut(s)	208, 305, 331, 337, 368, 707, 762, 765, 983
MflI	RGATCY	3 cut(s)	19, 833, 973
MhlI	GDGCHC	1 cut(s)	865
MluCI	AATT	4 cut(s)	25, 389, 398, 704
MlyI	GAGTC	2 cut(s)	189, 367
MmeI	TCCRAC	2 cut(s)	432, 680
MnlI	CCTC	8 cut(s)	178, 185, 459, 583, 615, 618, 663, 787
MseI	TTAA	4 cut(s)	11, 396, 501, 1013
MslI	CAYNNNNRTG	1 cut(s)	305
MspA1I	CMGCKG	1 cut(s)	683
MspI	CCGG	1 cut(s)	144
MspR9I	CCNGG	4 cut(s)	316, 332, 555, 720
MvaI	CCWGG	4 cut(s)	316, 332, 555, 720
MwoI	GCNNNNNNNGC	4 cut(s)	93, 220, 677, 955
NdeII	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
NlaIII	CATG	1 cut(s)	480
NlaIV	GGNNCC	3 cut(s)	624, 835, 850
NmeAIII	GCCGAG	2 cut(s)	172, 268
NmuCI	GTSAC	2 cut(s)	146, 370
NspI	RCATGY	1 cut(s)	480
PciI	ACATGT	1 cut(s)	476
PciSI	GCTCTTC	2 cut(s)	221, 320
PfoI	TCCNGGA	2 cut(s)	314, 718
PinAI	ACCGGT	1 cut(s)	143
PleI	GAGTC	2 cut(s)	188, 367
PpsI	GAGTC	2 cut(s)	188, 367
PscI	ACATGT	1 cut(s)	476
PsiI	TTATAA	1 cut(s)	513
Psp6I	CCWGG	4 cut(s)	314, 330, 553, 718
PspFI	CCCAGC	1 cut(s)	197
PspGI	CCWGG	4 cut(s)	314, 330, 553, 718
PspN4I	GGNNCC	3 cut(s)	624, 835, 850
PspPI	GGNCC	2 cut(s)	195, 849
PstI	CTGCAG	1 cut(s)	646
PsuI	RGATCY	3 cut(s)	19, 833, 973
PvuII	CAGCTG	1 cut(s)	683
RsaI	GTAC	3 cut(s)	33, 904, 1007
RsaNI	GTAC	3 cut(s)	32, 903, 1006
RseI	CAYNNNNRTG	1 cut(s)	305
SapI	GCTCTTC	2 cut(s)	221, 320
SaqAI	TTAA	4 cut(s)	11, 396, 501, 1013
Sau3AI	GATC	6 cut(s)	19, 79, 685, 833, 884, 973
Sau96I	GGNCC	2 cut(s)	195, 849
SchI	GAGTC	2 cut(s)	189, 367
ScrFI	CCNGG	4 cut(s)	316, 332, 555, 720
SduI	GDGCHC	1 cut(s)	865
SfaNI	GCATC	1 cut(s)	201
SfcI	CTRYAG	1 cut(s)	642
SinI	GGWCC	1 cut(s)	849
SmiMI	CAYNNNNRTG	1 cut(s)	305
Sse9I	AATT	4 cut(s)	25, 389, 398, 704
SsiI	CCGC	3 cut(s)	344, 668, 756
StyD4I	CCNGG	4 cut(s)	314, 330, 553, 718
TaaI	ACNGT	4 cut(s)	266, 587, 902, 981
TaiI	ACGT	1 cut(s)	37
TaqI	TCGA	3 cut(s)	78, 138, 824
TasI	AATT	4 cut(s)	25, 389, 398, 704
TauI	GCSGC	1 cut(s)	671
Tru1I	TTAA	4 cut(s)	11, 396, 501, 1013
Tru9I	TTAA	4 cut(s)	11, 396, 501, 1013
TscAI	CASTG	3 cut(s)	269, 289, 468
TseFI	GTSAC	2 cut(s)	146, 370
Tsp45I	GTSAC	2 cut(s)	146, 370
TspDTI	ATGAA	1 cut(s)	338
TspGWI	ACGGA	1 cut(s)	55
TspRI	CASTG	3 cut(s)	269, 289, 468
VpaK11BI	GGWCC	1 cut(s)	849
XapI	RAATTY	2 cut(s)	389, 704
XceI	RCATGY	1 cut(s)	480
XcmI	CCANNNNNNNNNTGG	1 cut(s)	421

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