Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0016142

Physical Location & Seq

Genomic Coordinates Forward (+)

38463246 .. 38467817

Gene Structure 4572 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002712

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1122 bp

ATGGACTACAACAACAAACTCGTCCTCGCACCCATGGTTCGCATTGGGACTCTGCCATTTAGATTACTTGCTGCTGACTACGGTGCCGACATAACCTACGGCGAGGAAATTATCGATCATAAGCTCATCAAATGCGACCGCAGAGTGAATGAGCAATTAGGGTCCATTGATTTTGTGGAGAAGGGGACAGGAGCTGTTGTTTTCAGAACATGCGACGAGGAACGGGATCGAGTTGTGTTTCAAATGGGTACTTCTGATGCTGTACGGGCCCTCAATGCTGCTCACATTGTGTGTAAAGATGTCGCTGCGGTAGATATAAATATGGGTTGCCCGAGGTCATTTTCTGTGAGTGGAGGAATGGGTGCTGCATTATTGTCAAAACCCGATCTTATTCATGATATTATGACTACATTGAGGAGGAACATGGATATATCTGTGACGTGTAAGATTCGACTACTGAAATCATCTCAGGATACTGTGGAATTGGCAAGACGAATTGAAAAAACTGGGGTTTCCGCTCTTGCTGTTCATGGAAGAAGAGTTGCAGATAGGCCGCGGGATCCTGCAAAGTGGAGTGAGATTGCTGATATCGTAGCATCATTATCCATTCCAGTCATAGCAAACGGTGATGTTTTTGAGTATGACGATTTTCAACGCATCAAAGTTGCTACAGGTGCCTCATCAGTAATGGCTGCAAGAGGAGCACTTTGGAATGCTTCAATTTTCAGTCCGAAGGGCAAACTACCATGGGAAGACGTGAAAAGGGAATATGTTAGGAAGAGCATCTTATGGGATAATGACATTAAAAGCACAAAGCACACACTGAAGGAAATGATAATGTATTATTCATCCCTTGAACTGCCGGAGGGAAAGGCTGTGATTAAATCAGAATCTTTGGAAGATCTAGCGCGGCTTTATGGAGAGGAGAAGAACTATGACTTTTGTTTATCACAAACTTCAGGGAAACCAAGTTATTGTCGTTATGGAGGAAAAAACCTAATTTTGACGTGCTTAGGAATTAGGAGTGGTGGAAGTAGTGAATCTAGAAAGCTGACAAGAATTTTCCGGCTAGATGCCCCATATGTGGTGGGCTGTGAAATACTTTTGTACCAGTCTGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001932 GO:0001933 GO:0002943 GO:0003674 GO:0003676 GO:0003723 GO:0003725 GO:0003824 GO:0004857 GO:0004860 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006469 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009892 GO:0009987 GO:0010467 GO:0010563 GO:0010605 GO:0010941 GO:0016070 GO:0016491 GO:0016627 GO:0017150 GO:0019207 GO:0019210 GO:0019220 GO:0019222 GO:0019887 GO:0030234 GO:0031323 GO:0031324 GO:0031399 GO:0031400 GO:0032268 GO:0032269 GO:0033673 GO:0034470 GO:0034641 GO:0034660 GO:0042325 GO:0042326 GO:0043086 GO:0043170 GO:0043412 GO:0043549 GO:0044092 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045859 GO:0045936 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051172 GO:0051174 GO:0051246 GO:0051248 GO:0051338 GO:0051348 GO:0055114 GO:0060255 GO:0060548 GO:0065007 GO:0065009 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0098772 GO:0140098 GO:0140101 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Dus

Protein Analysis

374

Amino Acids

41.41

Weight (kDa)

8.46

Isoelectric Point (pI)

38.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Dus	PF01207	9 - 279	5.6e-53	Dihydrouridine synthase (Dus)

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: OG0016142)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49640 AT3G49640
malus_domestica	MD06G1013700.v1.1
prunus_persica	Prupe.5G015900_v2.0.a1 Prupe.5G015900_v2.0.a1 Prupe.5G015900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr7g0214881
rosa_laevigata	RLG00000002712
rosa_multiflora	Rmu_ssc0000134.1_g000003
rosa_roxburghii	Rroxscaffold_3G00244940
rosa_rugosa	Rorug07G0147900 Rorug07G0148000.1
rosa_samantha	Rh7BG275800 Rh7DG288400
rosa_wichuraiana	Rw7G024300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	83, 674
AccBSI	CCGCTC	1 cut(s)	518
AccII	CGCG	2 cut(s)	556, 910
AciI	CCGC	6 cut(s)	139, 308, 516, 554, 556, 910
AclWI	GGATC	3 cut(s)	234, 554, 567
AcsI	RAATTY	1 cut(s)	1059
AcuI	CTGAAG	2 cut(s)	845, 942
AdeI	CACNNNGTG	1 cut(s)	289
AfaI	GTAC	3 cut(s)	250, 264, 1109
AfiI	CCNNNNNNNGG	1 cut(s)	1084
AflIII	ACRYGT	1 cut(s)	440
AgsI	TTSAA	5 cut(s)	242, 500, 653, 720, 857
AjiI	CACGTC	3 cut(s)	441, 757, 1008
AluBI	AGCT	3 cut(s)	124, 194, 1051
AluI	AGCT	3 cut(s)	124, 194, 1051
Alw21I	GWGCWC	1 cut(s)	706
AlwI	GGATC	3 cut(s)	234, 554, 567
AlwNI	CAGNNNCTG	1 cut(s)	194
Ama87I	CYCGRG	1 cut(s)	331
AoxI	GGCC	2 cut(s)	267, 551
ApaI	GGGCCC	1 cut(s)	271
ApeKI	GCWGC	5 cut(s)	71, 278, 305, 365, 692
ApoI	RAATTY	1 cut(s)	1059
AspLEI	GCGC	1 cut(s)	910
AspS9I	GGNCC	3 cut(s)	162, 267, 268
AsuHPI	GGTGA	1 cut(s)	638
AvaI	CYCGRG	1 cut(s)	331
AvaII	GGWCC	1 cut(s)	162
BaeGI	GKGCMC	1 cut(s)	271
BaeI	ACNNNNGTAYC	1 cut(s)	1091
BamHI	GGATCC	1 cut(s)	559
BanI	GGYRCC	2 cut(s)	83, 674
BanII	GRGCYC	1 cut(s)	271
BbsI	GAAGAC	1 cut(s)	759
Bbv12I	GWGCWC	1 cut(s)	706
BbvI	GCAGC	5 cut(s)	58, 265, 292, 352, 679
BceAI	ACGGC	1 cut(s)	115
BciVI	GTATCC	1 cut(s)	466
BfaI	CTAG	3 cut(s)	905, 1044, 1070
BfmI	CTRYAG	1 cut(s)	669
BfuI	GTATCC	1 cut(s)	466
BglII	AGATCT	1 cut(s)	901
BisI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
BlsI	GCNGC	7 cut(s)	73, 280, 307, 367, 555, 694, 912
Bme18I	GGWCC	1 cut(s)	162
BmeT110I	CYCGRG	1 cut(s)	331
BmgBI	CACGTC	3 cut(s)	441, 757, 1008
BmgT120I	GGNCC	3 cut(s)	162, 267, 268
BmiI	GGNNCC	5 cut(s)	85, 163, 269, 561, 676
BmrI	ACTGGG	1 cut(s)	516
BmsI	GCATC	5 cut(s)	247, 605, 666, 792, 1063
BmuI	ACTGGG	1 cut(s)	516
BpiI	GAAGAC	1 cut(s)	759
Bpu10I	CCTNAGC	1 cut(s)	1012
Bsa29I	ATCGAT	1 cut(s)	114
BsaJI	CCNNGG	4 cut(s)	33, 332, 554, 746
BsaXI	ACNNNNNCTCC	2 cut(s)	183, 213
Bsc4I	CCNNNNNNNGG	1 cut(s)	1084
Bse1I	ACTGG	3 cut(s)	511, 611, 1111
BseCI	ATCGAT	1 cut(s)	114
BseDI	CCNNGG	4 cut(s)	33, 332, 554, 746
BseGI	GGATG	1 cut(s)	848
BseLI	CCNNNNNNNGG	1 cut(s)	1084
BseMII	CTCAG	1 cut(s)	482
BseNI	ACTGG	3 cut(s)	511, 611, 1111
BseRI	GAGGAG	3 cut(s)	430, 714, 938
BseSI	GKGCMC	1 cut(s)	271
BseXI	GCAGC	5 cut(s)	58, 265, 292, 352, 679
Bsh1236I	CGCG	2 cut(s)	556, 910
Bsh1285I	CGRYCG	1 cut(s)	139
BshFI	GGCC	2 cut(s)	269, 553
BshNI	GGYRCC	2 cut(s)	83, 674
BshVI	ATCGAT	1 cut(s)	114
BsiEI	CGRYCG	1 cut(s)	139
BsiHKAI	GWGCWC	1 cut(s)	706
BsiHKCI	CYCGRG	1 cut(s)	331
BsiSI	CCGG	2 cut(s)	863, 1066
BslFI	GGGAC	2 cut(s)	61, 199
BslI	CCNNNNNNNGG	1 cut(s)	1084
BsmFI	GGGAC	2 cut(s)	61, 199
BsmI	GAATGC	1 cut(s)	718
BsnI	GGCC	2 cut(s)	269, 553
BsoBI	CYCGRG	1 cut(s)	331
Bsp120I	GGGCCC	1 cut(s)	267
Bsp1286I	GDGCHC	2 cut(s)	271, 706
Bsp143I	GATC	5 cut(s)	115, 226, 385, 559, 901
Bsp19I	CCATGG	2 cut(s)	33, 746
BspACI	CCGC	6 cut(s)	139, 308, 516, 554, 556, 910
BspANI	GGCC	2 cut(s)	269, 553
BspCNI	CTCAG	1 cut(s)	481
BspDI	ATCGAT	1 cut(s)	114
BspFNI	CGCG	2 cut(s)	556, 910
BspHI	TCATGA	1 cut(s)	394
BspLI	GGNNCC	5 cut(s)	85, 163, 269, 561, 676
BspPI	GGATC	3 cut(s)	234, 554, 567
BspQI	GCTCTTC	1 cut(s)	773
BspT107I	GGYRCC	2 cut(s)	83, 674
BsrBI	CCGCTC	1 cut(s)	518
BsrI	ACTGG	3 cut(s)	511, 611, 1111
BssECI	CCNNGG	4 cut(s)	33, 332, 554, 746
BssMI	GATC	5 cut(s)	115, 226, 385, 559, 901
BssT1I	CCWWGG	2 cut(s)	33, 746
Bst4CI	ACNGT	3 cut(s)	83, 478, 626
Bst6I	CTCTTC	2 cut(s)	532, 773
BstDEI	CTNAG	2 cut(s)	468, 1012
BstDSI	CCRYGG	3 cut(s)	33, 554, 746
BstF5I	GGATG	1 cut(s)	848
BstFNI	CGCG	2 cut(s)	556, 910
BstHHI	GCGC	1 cut(s)	910
BstKTI	GATC	5 cut(s)	118, 229, 388, 562, 904
BstMBI	GATC	5 cut(s)	115, 226, 385, 559, 901
BstMCI	CGRYCG	1 cut(s)	139
BstMWI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
BstNSI	RCATGY	1 cut(s)	213
BstSFI	CTRYAG	1 cut(s)	669
BstSLI	GKGCMC	1 cut(s)	271
BstUI	CGCG	2 cut(s)	556, 910
BstV1I	GCAGC	5 cut(s)	58, 265, 292, 352, 679
BstV2I	GAAGAC	1 cut(s)	759
BstX2I	RGATCY	2 cut(s)	559, 901
BstYI	RGATCY	2 cut(s)	559, 901
Bsu15I	ATCGAT	1 cut(s)	114
BsuI	GTATCC	1 cut(s)	466
BsuRI	GGCC	2 cut(s)	269, 553
BsuTUI	ATCGAT	1 cut(s)	114
BtgI	CCRYGG	3 cut(s)	33, 554, 746
BtrI	CACGTC	3 cut(s)	441, 757, 1008
BtsCI	GGATG	1 cut(s)	848
BtsIMutI	CAGTG	1 cut(s)	821
CaiI	CAGNNNCTG	1 cut(s)	194
CciI	TCATGA	1 cut(s)	394
CfoI	GCGC	1 cut(s)	910
Cfr13I	GGNCC	3 cut(s)	162, 267, 268
Cfr42I	CCGCGG	1 cut(s)	557
ClaI	ATCGAT	1 cut(s)	114
Csp6I	GTAC	3 cut(s)	249, 263, 1108
CviAII	CATG	6 cut(s)	34, 210, 395, 424, 530, 747
CviQI	GTAC	3 cut(s)	249, 263, 1108
DdeI	CTNAG	2 cut(s)	468, 1012
DpnI	GATC	5 cut(s)	117, 228, 387, 561, 903
DpnII	GATC	5 cut(s)	115, 226, 385, 559, 901
DraIII	CACNNNGTG	1 cut(s)	289
Eam1104I	CTCTTC	2 cut(s)	532, 773
EarI	CTCTTC	2 cut(s)	532, 773
Eco130I	CCWWGG	2 cut(s)	33, 746
Eco24I	GRGCYC	1 cut(s)	271
Eco32I	GATATC	1 cut(s)	589
Eco47I	GGWCC	1 cut(s)	162
Eco57I	CTGAAG	2 cut(s)	845, 942
Eco88I	CYCGRG	1 cut(s)	331
EcoO109I	RGGNCCY	1 cut(s)	268
EcoRV	GATATC	1 cut(s)	589
EcoT14I	CCWWGG	2 cut(s)	33, 746
EcoT38I	GRGCYC	1 cut(s)	271
ErhI	CCWWGG	2 cut(s)	33, 746
FaeI	CATG	6 cut(s)	37, 213, 398, 427, 533, 750
FalI	AAGNNNNNCTT	2 cut(s)	770, 802
FaqI	GGGAC	2 cut(s)	61, 199
FatI	CATG	6 cut(s)	33, 209, 394, 423, 529, 746
FauI	CCCGC	1 cut(s)	549
FauNDI	CATATG	1 cut(s)	1081
Fnu4HI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
FokI	GGATG	1 cut(s)	835
FriOI	GRGCYC	1 cut(s)	271
Fsp4HI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
FspBI	CTAG	3 cut(s)	905, 1044, 1070
GlaI	GCGC	1 cut(s)	909
GluI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
HaeIII	GGCC	2 cut(s)	269, 553
HapII	CCGG	2 cut(s)	863, 1066
HhaI	GCGC	1 cut(s)	910
Hin1II	CATG	6 cut(s)	37, 213, 398, 427, 533, 750
Hin6I	GCGC	1 cut(s)	908
HinP1I	GCGC	1 cut(s)	908
HinfI	GANTC	4 cut(s)	49, 448, 890, 1040
HpaII	CCGG	2 cut(s)	863, 1066
HphI	GGTGA	1 cut(s)	638
Hpy188I	TCNGA	4 cut(s)	206, 256, 732, 889
Hpy188III	TCNNGA	3 cut(s)	395, 470, 1044
Hpy99I	CGWCG	1 cut(s)	218
HpyAV	CCTTC	3 cut(s)	175, 727, 820
HpyCH4III	ACNGT	3 cut(s)	83, 478, 626
HpyCH4IV	ACGT	3 cut(s)	440, 756, 1007
HpyCH4V	TGCA	4 cut(s)	368, 545, 566, 695
HpyF10VI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
HpyF3I	CTNAG	2 cut(s)	468, 1012
HpySE526I	ACGT	3 cut(s)	440, 756, 1007
Hsp92II	CATG	6 cut(s)	37, 213, 398, 427, 533, 750
HspAI	GCGC	1 cut(s)	908
KspI	CCGCGG	1 cut(s)	557
Kzo9I	GATC	5 cut(s)	115, 226, 385, 559, 901
LguI	GCTCTTC	1 cut(s)	773
LmnI	GCTCC	2 cut(s)	191, 701
Lsp1109I	GCAGC	5 cut(s)	58, 265, 292, 352, 679
LweI	GCATC	5 cut(s)	247, 605, 666, 792, 1063
MaeI	CTAG	3 cut(s)	905, 1044, 1070
MaeII	ACGT	3 cut(s)	440, 756, 1007
MaeIII	GTNAC	1 cut(s)	436
MalI	GATC	5 cut(s)	117, 228, 387, 561, 903
MbiI	CCGCTC	1 cut(s)	518
MboI	GATC	5 cut(s)	115, 226, 385, 559, 901
MboII	GAAGA	6 cut(s)	546, 549, 764, 790, 911, 940
MflI	RGATCY	2 cut(s)	559, 901
MhlI	GDGCHC	2 cut(s)	271, 706
MluCI	AATT	8 cut(s)	108, 155, 482, 495, 720, 999, 1017, 1059
MlyI	GAGTC	1 cut(s)	43
MseI	TTAA	2 cut(s)	804, 882
MspA1I	CMGCKG	1 cut(s)	556
MspI	CCGG	2 cut(s)	863, 1066
Mva1269I	GAATGC	1 cut(s)	718
MvnI	CGCG	2 cut(s)	556, 910
MwoI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
NcoI	CCATGG	2 cut(s)	33, 746
NdeI	CATATG	1 cut(s)	1081
NdeII	GATC	5 cut(s)	115, 226, 385, 559, 901
NlaIII	CATG	6 cut(s)	37, 213, 398, 427, 533, 750
NlaIV	GGNNCC	5 cut(s)	85, 163, 269, 561, 676
NmuCI	GTSAC	1 cut(s)	436
NspI	RCATGY	1 cut(s)	213
PagI	TCATGA	1 cut(s)	394
PciSI	GCTCTTC	1 cut(s)	773
PctI	GAATGC	1 cut(s)	718
PfeI	GAWTC	3 cut(s)	448, 890, 1040
PkrI	GCNGC	7 cut(s)	73, 280, 307, 367, 555, 694, 912
PleI	GAGTC	1 cut(s)	43
PpsI	GAGTC	1 cut(s)	43
PspN4I	GGNNCC	5 cut(s)	85, 163, 269, 561, 676
PspOMI	GGGCCC	1 cut(s)	267
PspPI	GGNCC	3 cut(s)	162, 267, 268
PstNI	CAGNNNCTG	1 cut(s)	194
PsuI	RGATCY	2 cut(s)	559, 901
RsaI	GTAC	3 cut(s)	250, 264, 1109
RsaNI	GTAC	3 cut(s)	249, 263, 1108
SacII	CCGCGG	1 cut(s)	557
SapI	GCTCTTC	1 cut(s)	773
SaqAI	TTAA	2 cut(s)	804, 882
SatI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
Sau3AI	GATC	5 cut(s)	115, 226, 385, 559, 901
Sau96I	GGNCC	3 cut(s)	162, 267, 268
SchI	GAGTC	1 cut(s)	43
SduI	GDGCHC	2 cut(s)	271, 706
SfaNI	GCATC	5 cut(s)	247, 605, 666, 792, 1063
SfcI	CTRYAG	1 cut(s)	669
Sfr303I	CCGCGG	1 cut(s)	557
SgrBI	CCGCGG	1 cut(s)	557
SinI	GGWCC	1 cut(s)	162
Sse9I	AATT	8 cut(s)	108, 155, 482, 495, 720, 999, 1017, 1059
SsiI	CCGC	6 cut(s)	139, 308, 516, 554, 556, 910
SspMI	CTAG	3 cut(s)	905, 1044, 1070
StyI	CCWWGG	2 cut(s)	33, 746
TaaI	ACNGT	3 cut(s)	83, 478, 626
TaiI	ACGT	3 cut(s)	443, 759, 1010
TaqI	TCGA	3 cut(s)	114, 229, 451
TasI	AATT	8 cut(s)	108, 155, 482, 495, 720, 999, 1017, 1059
TauI	GCSGC	2 cut(s)	556, 913
TfiI	GAWTC	3 cut(s)	448, 890, 1040
Tru1I	TTAA	2 cut(s)	804, 882
Tru9I	TTAA	2 cut(s)	804, 882
TscAI	CASTG	1 cut(s)	828
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	5 cut(s)	71, 278, 305, 365, 692
Tsp45I	GTSAC	1 cut(s)	436
TspDTI	ATGAA	3 cut(s)	383, 518, 837
TspRI	CASTG	1 cut(s)	828
VpaK11BI	GGWCC	1 cut(s)	162
XapI	RAATTY	1 cut(s)	1059
XbaI	TCTAGA	1 cut(s)	1043
XceI	RCATGY	1 cut(s)	213
XcmI	CCANNNNNNNNNTGG	1 cut(s)	172
XspI	CTAG	3 cut(s)	905, 1044, 1070

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