Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0016142

Physical Location & Seq

Genomic Coordinates Forward (+)

37748012 .. 37753080

Gene Structure 5069 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00244940.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGACTACAACAACAAACTCGTCCTCGCACCCATGGTTCGCATTGGGACTCTGCCATTTAGATTACTTGCTGCTGATTACGGTGCCGACATAACCTACGGCGAGGAAATTATCGATCATAAGCTCATCAAATGCCACCGCAGAGTGAATGAGCAATTAGGGTCCATTGATTTTGTGGAGAAGGGGACAGGAGCTGTTGTTTTCAGAACATGCGACCAGGAACGGGATCGGGTTGTGTTTCAAATGGGTACTTCTGATGCTGTACGGGCCCTCAATGCTGCTTACATTGTGTGTAAAGATGTCGCCGCAGTAGATATAAATATGGGTTGCCCAAGGTCATTTTCTGTGAGTGGAGGAATGGGTGCTGCATTATTGTCAAAACCTGATCTTATTCATGATATTATGACTACATTGAGGAGGAACCTGGATATATCTGTGACGTGTAAGATTCGACTACTGAAATCATCTCAGGATACTGTGGAACTGGCAAGACGAATTGAAAAAACTGGGGTTTCTGCTCTTGCTGTTCATGGAAGAAGAGTTGCAGATAGGCCGCGGGATCCAGCAAAGTGGAGTGAGATTGCTGATATTGTAGCATCATTATCCATTCCAGTCATAGCAAACGGCGATGTTTTTGAGTATGATGATTTTCAGCGCATCAAAGTTGCTACAGGTGCCTCATCAGTAATGGCTGCAAGAGGAGCACTTTGGAATGCTTCAATTTTCAGTCCAGAGGGCAAACTACCATGGGAAGACGTGAAAAGGGAATATGTTAGGAAGAGCATCTTATGGGACAATGACATTAAAAACACAAAGCACACACTGAAGGAAATGATAATGTATTATTCATCCCTTGAACTACCGGAGGGAAAGGCTGTGATCAAATCAGAATCCTTGGAAGATCTAGCGCGGCTTTATGGAGAGGAGAAGAACTATGACTTTGTTAAAAAAAATTGA

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

318

Amino Acids

35.53

Weight (kDa)

7.61

Isoelectric Point (pI)

34.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Dus	PF01207	9 - 277	4.8e-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
AccII	CGCG	2 cut(s)	556, 910
AciI	CCGC	5 cut(s)	139, 306, 554, 556, 910
AclWI	GGATC	3 cut(s)	234, 554, 567
AcuI	CTGAAG	1 cut(s)	845
AfaI	GTAC	2 cut(s)	250, 264
AfiI	CCNNNNNNNGG	1 cut(s)	223
AflIII	ACRYGT	1 cut(s)	440
AgsI	TTSAA	4 cut(s)	242, 500, 720, 857
AjiI	CACGTC	2 cut(s)	441, 757
AjnI	CCWGG	2 cut(s)	216, 423
AjuI	GAANNNNNNNTTGG	2 cut(s)	325, 357
AluBI	AGCT	2 cut(s)	124, 194
AluI	AGCT	2 cut(s)	124, 194
Alw21I	GWGCWC	1 cut(s)	706
AlwI	GGATC	3 cut(s)	234, 554, 567
AlwNI	CAGNNNCTG	1 cut(s)	194
AoxI	GGCC	2 cut(s)	267, 551
ApaI	GGGCCC	1 cut(s)	271
ApeKI	GCWGC	4 cut(s)	71, 278, 365, 692
AspLEI	GCGC	2 cut(s)	657, 910
AspS9I	GGNCC	3 cut(s)	162, 267, 268
AvaII	GGWCC	1 cut(s)	162
BaeGI	GKGCMC	1 cut(s)	271
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	4 cut(s)	58, 265, 352, 679
BceAI	ACGGC	2 cut(s)	115, 640
BciT130I	CCWGG	2 cut(s)	218, 425
BciVI	GTATCC	1 cut(s)	466
BclI	TGATCA	1 cut(s)	879
BfaI	CTAG	1 cut(s)	905
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
Bme1390I	CCNGG	2 cut(s)	218, 425
Bme18I	GGWCC	1 cut(s)	162
BmgBI	CACGTC	2 cut(s)	441, 757
BmgT120I	GGNCC	3 cut(s)	162, 267, 268
BmiI	GGNNCC	6 cut(s)	85, 163, 269, 422, 561, 676
BmrFI	CCNGG	2 cut(s)	218, 425
BmrI	ACTGGG	1 cut(s)	516
BmsI	GCATC	4 cut(s)	247, 605, 666, 792
BmuI	ACTGGG	1 cut(s)	516
BpiI	GAAGAC	1 cut(s)	759
Bsa29I	ATCGAT	1 cut(s)	114
BsaJI	CCNNGG	5 cut(s)	33, 332, 554, 746, 894
BsaWI	WCCGGW	1 cut(s)	862
BsaXI	ACNNNNNCTCC	2 cut(s)	183, 213
Bsc4I	CCNNNNNNNGG	1 cut(s)	223
Bse1I	ACTGG	3 cut(s)	489, 511, 611
BseBI	CCWGG	2 cut(s)	218, 425
BseCI	ATCGAT	1 cut(s)	114
BseDI	CCNNGG	5 cut(s)	33, 332, 554, 746, 894
BseGI	GGATG	1 cut(s)	848
BseLI	CCNNNNNNNGG	1 cut(s)	223
BseMII	CTCAG	1 cut(s)	482
BseNI	ACTGG	3 cut(s)	489, 511, 611
BseRI	GAGGAG	3 cut(s)	430, 714, 938
BseSI	GKGCMC	1 cut(s)	271
BseXI	GCAGC	4 cut(s)	58, 265, 352, 679
Bsh1236I	CGCG	2 cut(s)	556, 910
BshFI	GGCC	2 cut(s)	269, 553
BshNI	GGYRCC	2 cut(s)	83, 674
BshVI	ATCGAT	1 cut(s)	114
BsiHKAI	GWGCWC	1 cut(s)	706
BsiSI	CCGG	1 cut(s)	863
BslFI	GGGAC	3 cut(s)	61, 199, 806
BslI	CCNNNNNNNGG	1 cut(s)	223
BsmFI	GGGAC	3 cut(s)	61, 199, 806
BsmI	GAATGC	1 cut(s)	718
BsnI	GGCC	2 cut(s)	269, 553
Bsp120I	GGGCCC	1 cut(s)	267
Bsp1286I	GDGCHC	2 cut(s)	271, 706
Bsp143I	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
Bsp19I	CCATGG	2 cut(s)	33, 746
BspACI	CCGC	5 cut(s)	139, 306, 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	6 cut(s)	85, 163, 269, 422, 561, 676
BspPI	GGATC	3 cut(s)	234, 554, 567
BspQI	GCTCTTC	1 cut(s)	773
BspT107I	GGYRCC	2 cut(s)	83, 674
BsrI	ACTGG	3 cut(s)	489, 511, 611
BssECI	CCNNGG	5 cut(s)	33, 332, 554, 746, 894
BssMI	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
BssT1I	CCWWGG	4 cut(s)	33, 332, 746, 894
Bst2UI	CCWGG	2 cut(s)	218, 425
Bst4CI	ACNGT	2 cut(s)	83, 478
Bst6I	CTCTTC	2 cut(s)	532, 773
BstDEI	CTNAG	1 cut(s)	468
BstDSI	CCRYGG	3 cut(s)	33, 554, 746
BstF5I	GGATG	1 cut(s)	848
BstFNI	CGCG	2 cut(s)	556, 910
BstHHI	GCGC	2 cut(s)	657, 910
BstKTI	GATC	6 cut(s)	118, 229, 388, 562, 882, 904
BstMBI	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
BstMWI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
BstNI	CCWGG	2 cut(s)	218, 425
BstNSI	RCATGY	1 cut(s)	213
BstSCI	CCNGG	2 cut(s)	216, 423
BstSFI	CTRYAG	1 cut(s)	669
BstSLI	GKGCMC	1 cut(s)	271
BstUI	CGCG	2 cut(s)	556, 910
BstV1I	GCAGC	4 cut(s)	58, 265, 352, 679
BstV2I	GAAGAC	1 cut(s)	759
BstX2I	RGATCY	2 cut(s)	559, 901
BstXI	CCANNNNNNTGG	1 cut(s)	570
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
BtgZI	GCGATG	1 cut(s)	642
BtrI	CACGTC	2 cut(s)	441, 757
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	2 cut(s)	657, 910
Cfr13I	GGNCC	3 cut(s)	162, 267, 268
Cfr42I	CCGCGG	1 cut(s)	557
ClaI	ATCGAT	1 cut(s)	114
Csp6I	GTAC	2 cut(s)	249, 263
CviAII	CATG	5 cut(s)	34, 210, 395, 530, 747
CviJI	RGCY	7 cut(s)	124, 194, 269, 553, 692, 875, 913
CviKI_1	RGCY	7 cut(s)	124, 194, 269, 553, 692, 875, 913
CviQI	GTAC	2 cut(s)	249, 263
DdeI	CTNAG	1 cut(s)	468
DpnI	GATC	6 cut(s)	117, 228, 387, 561, 881, 903
DpnII	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
Eam1104I	CTCTTC	2 cut(s)	532, 773
EarI	CTCTTC	2 cut(s)	532, 773
Eco130I	CCWWGG	4 cut(s)	33, 332, 746, 894
Eco24I	GRGCYC	1 cut(s)	271
Eco47I	GGWCC	1 cut(s)	162
Eco57I	CTGAAG	1 cut(s)	845
EcoO109I	RGGNCCY	1 cut(s)	268
EcoRII	CCWGG	2 cut(s)	216, 423
EcoT14I	CCWWGG	4 cut(s)	33, 332, 746, 894
EcoT38I	GRGCYC	1 cut(s)	271
ErhI	CCWWGG	4 cut(s)	33, 332, 746, 894
FaeI	CATG	5 cut(s)	37, 213, 398, 533, 750
FalI	AAGNNNNNCTT	2 cut(s)	770, 802
FaqI	GGGAC	3 cut(s)	61, 199, 806
FatI	CATG	5 cut(s)	33, 209, 394, 529, 746
FauI	CCCGC	1 cut(s)	549
FbaI	TGATCA	1 cut(s)	879
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	1 cut(s)	905
GlaI	GCGC	2 cut(s)	656, 909
GluI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
HaeIII	GGCC	2 cut(s)	269, 553
HapII	CCGG	1 cut(s)	863
HhaI	GCGC	2 cut(s)	657, 910
Hin1II	CATG	5 cut(s)	37, 213, 398, 533, 750
Hin6I	GCGC	2 cut(s)	655, 908
HinP1I	GCGC	2 cut(s)	655, 908
HinfI	GANTC	3 cut(s)	49, 448, 890
HpaII	CCGG	1 cut(s)	863
Hpy188I	TCNGA	3 cut(s)	206, 256, 889
Hpy188III	TCNNGA	3 cut(s)	395, 470, 731
HpyAV	CCTTC	2 cut(s)	175, 820
HpyCH4III	ACNGT	2 cut(s)	83, 478
HpyCH4IV	ACGT	2 cut(s)	440, 756
HpyCH4V	TGCA	3 cut(s)	368, 545, 695
HpyF10VI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
HpyF3I	CTNAG	1 cut(s)	468
HpySE526I	ACGT	2 cut(s)	440, 756
Hsp92II	CATG	5 cut(s)	37, 213, 398, 533, 750
HspAI	GCGC	2 cut(s)	655, 908
Ksp22I	TGATCA	1 cut(s)	879
KspI	CCGCGG	1 cut(s)	557
Kzo9I	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
LguI	GCTCTTC	1 cut(s)	773
LmnI	GCTCC	2 cut(s)	191, 701
Lsp1109I	GCAGC	4 cut(s)	58, 265, 352, 679
LweI	GCATC	4 cut(s)	247, 605, 666, 792
MaeI	CTAG	1 cut(s)	905
MaeII	ACGT	2 cut(s)	440, 756
MaeIII	GTNAC	1 cut(s)	436
MalI	GATC	6 cut(s)	117, 228, 387, 561, 881, 903
MboI	GATC	6 cut(s)	115, 226, 385, 559, 879, 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	5 cut(s)	108, 155, 495, 720, 952
MlyI	GAGTC	1 cut(s)	43
MseI	TTAA	2 cut(s)	804, 945
MspA1I	CMGCKG	1 cut(s)	556
MspI	CCGG	1 cut(s)	863
MspR9I	CCNGG	2 cut(s)	218, 425
Mva1269I	GAATGC	1 cut(s)	718
MvaI	CCWGG	2 cut(s)	218, 425
MvnI	CGCG	2 cut(s)	556, 910
MwoI	GCNNNNNNNGC	4 cut(s)	266, 275, 674, 701
NcoI	CCATGG	2 cut(s)	33, 746
NdeII	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
NlaIII	CATG	5 cut(s)	37, 213, 398, 533, 750
NlaIV	GGNNCC	6 cut(s)	85, 163, 269, 422, 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	2 cut(s)	448, 890
PkrI	GCNGC	7 cut(s)	73, 280, 307, 367, 555, 694, 912
PleI	GAGTC	1 cut(s)	43
PpsI	GAGTC	1 cut(s)	43
Psp6I	CCWGG	2 cut(s)	216, 423
PspGI	CCWGG	2 cut(s)	216, 423
PspN4I	GGNNCC	6 cut(s)	85, 163, 269, 422, 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	2 cut(s)	250, 264
RsaNI	GTAC	2 cut(s)	249, 263
SacII	CCGCGG	1 cut(s)	557
SapI	GCTCTTC	1 cut(s)	773
SaqAI	TTAA	2 cut(s)	804, 945
SatI	GCNGC	7 cut(s)	72, 279, 306, 366, 554, 693, 911
Sau3AI	GATC	6 cut(s)	115, 226, 385, 559, 879, 901
Sau96I	GGNCC	3 cut(s)	162, 267, 268
SchI	GAGTC	1 cut(s)	43
ScrFI	CCNGG	2 cut(s)	218, 425
SduI	GDGCHC	2 cut(s)	271, 706
SetI	ASST	9 cut(s)	98, 126, 196, 338, 385, 426, 443, 676, 759
SfaNI	GCATC	4 cut(s)	247, 605, 666, 792
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	5 cut(s)	108, 155, 495, 720, 952
SsiI	CCGC	5 cut(s)	139, 306, 554, 556, 910
SspMI	CTAG	1 cut(s)	905
StyD4I	CCNGG	2 cut(s)	216, 423
StyI	CCWWGG	4 cut(s)	33, 332, 746, 894
TaaI	ACNGT	2 cut(s)	83, 478
TaiI	ACGT	2 cut(s)	443, 759
TaqI	TCGA	2 cut(s)	114, 451
TasI	AATT	5 cut(s)	108, 155, 495, 720, 952
TauI	GCSGC	3 cut(s)	308, 556, 913
TfiI	GAWTC	2 cut(s)	448, 890
Tru1I	TTAA	2 cut(s)	804, 945
Tru9I	TTAA	2 cut(s)	804, 945
TscAI	CASTG	1 cut(s)	828
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	4 cut(s)	71, 278, 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
XceI	RCATGY	1 cut(s)	213
XcmI	CCANNNNNNNNNTGG	1 cut(s)	172
XspI	CTAG	1 cut(s)	905

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