Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0006171

Physical Location & Seq

Genomic Coordinates Reverse (-)

5071909 .. 5072558

Gene Structure 650 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG060200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGCAGATGGTACACTACATTTCTGGTGGGCTACGTGTGAACCCGAACTTGTATGAGTCTGGAAAGGTCTGTCTCAGTCTGCTTAACACGTGGACTGGTACGGGCAGTGAAGTTTGGAATCCTGGGAGCTCCACCATTCTTCAAGTTCTTCTCTCCCTTCAGGCCCTTGTGCTTAATGACAGGCCATATTTCAATGAAGCTGGATATGATCAGCAGGTGGGAAGAACTGAGGGAGAGAAAAACTCAGTGAGCTATAATGAAAATGCATTCCTTATGACTTGCAAGTCCATGCTGTTTTCTCTCCAAAAGCCGCCTAAGCATTTTGAGGGGCTTGTGATGGAACACTTCACTCAGCGCTCTGAAAATATTCTAATGTCTTGTAAGGCATATATGGAGGGGGTTCCAATAGGGTGTGCTGTTGATTTTCAGAAAACCGATGACAAAGAGGGAAGCTCTACTGGGTTCAAAATTATGCTTGCTAAGCTGTTTCAGAAACTAGTGGAGGCATTTTCTGCTAAGGGAATCGACTGCAGCCAGTTCATCGCGCCAGGGAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005794 GO:0006464 GO:0006807 GO:0006810 GO:0006811 GO:0006817 GO:0006820 GO:0006950 GO:0007154 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009267 GO:0009605 GO:0009987 GO:0009991 GO:0010966 GO:0012505 GO:0015698 GO:0016036 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0030163 GO:0031625 GO:0031667 GO:0031668 GO:0031669 GO:0032446 GO:0032879 GO:0033554 GO:0034762 GO:0034765 GO:0036211 GO:0042592 GO:0042594 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043269 GO:0043412 GO:0044070 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044389 GO:0044424 GO:0044444 GO:0044464 GO:0048878 GO:0050789 GO:0050801 GO:0050896 GO:0051049 GO:0051179 GO:0051234 GO:0051716 GO:0055062 GO:0055081 GO:0055083 GO:0061630 GO:0061659 GO:0065007 GO:0065008 GO:0070647 GO:0071496 GO:0071704 GO:0072505 GO:0072506 GO:0098771 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1903795 GO:1903959 GO:2000185

KEGG Pathways

Metabolic & Signaling

ko04120 map04120

Pfam Domains

Protein Families

UQ_con

Protein Analysis

185

Amino Acids

20.53

Weight (kDa)

6.3

Isoelectric Point (pI)

31.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UQ_con	PF00179	13 - 88	1.3e-07	Ubiquitin-conjugating enzyme

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)

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Publication-ready

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Orthologous Genes (Group: OG0006171)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G33770
fragaria_vesca	FvH4_3g09200 FvH4_3g29950
malus_domestica	MD05G1312700.v1.1 MD10G1294500.v1.1
prunus_persica	Prupe.4G047400_v2.0.a1 Prupe.4G047400_v2.0.a1
pyrus_communis	pycom05g29070 pycom05g29080 pycom10g24620 pycom10g24630 pycom10g24640
rosa_chinensis	RchiOBHm_Chr5g0008401
rosa_laevigata	RLG00000031568
rosa_multiflora	Rmu_co8007308.1_g000001 Rmu_co8292313.1_g000001 Rmu_sc0004326.1_g000003 Rmu_sc0028200.1_g000001 Rmu_ssc0000388.1_g000061
rosa_roxburghii	Rroxscaffold_1G00068090
rosa_rugosa	Rorug04G0435600
rosa_samantha	Rh5AG064200 Rh5BG061400 Rh5CG071300 Rh5DG060200 Rh5DG060300
rosa_wichuraiana	Rw5G005660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	205
AasI	GACNNNNNNGTC	1 cut(s)	283
Acc36I	ACCTGC	1 cut(s)	205
AccII	CGCG	1 cut(s)	545
AciI	CCGC	1 cut(s)	311
AcuI	CTGAAG	1 cut(s)	143
AcvI	CACGTG	1 cut(s)	90
AfaI	GTAC	2 cut(s)	12, 100
AfeI	AGCGCT	1 cut(s)	356
AflIII	ACRYGT	2 cut(s)	34, 87
AgsI	TTSAA	3 cut(s)	143, 193, 466
AhlI	ACTAGT	1 cut(s)	496
AjnI	CCWGG	2 cut(s)	121, 547
AluBI	AGCT	5 cut(s)	129, 200, 252, 453, 484
AluI	AGCT	5 cut(s)	129, 200, 252, 453, 484
Alw21I	GWGCWC	1 cut(s)	131
Alw26I	GTCTC	1 cut(s)	77
Aor51HI	AGCGCT	1 cut(s)	356
AoxI	GGCC	2 cut(s)	162, 182
ApeKI	GCWGC	1 cut(s)	531
Asp700I	GAANNNNTTC	1 cut(s)	366
AspLEI	GCGC	2 cut(s)	357, 547
AspS9I	GGNCC	1 cut(s)	163
BanII	GRGCYC	1 cut(s)	131
BbrPI	CACGTG	1 cut(s)	90
Bbv12I	GWGCWC	1 cut(s)	131
BbvI	GCAGC	1 cut(s)	543
BccI	CCATC	1 cut(s)	331
BciT130I	CCWGG	2 cut(s)	123, 549
BclI	TGATCA	1 cut(s)	208
BcoDI	GTCTC	1 cut(s)	77
BcuI	ACTAGT	1 cut(s)	496
BfaI	CTAG	1 cut(s)	497
BfmI	CTRYAG	1 cut(s)	529
BfoI	RGCGCY	1 cut(s)	358
BfuAI	ACCTGC	1 cut(s)	205
BisI	GCNGC	2 cut(s)	311, 532
BlpI	GCTNAGC	1 cut(s)	480
BlsI	GCNGC	2 cut(s)	312, 533
Bme1390I	CCNGG	2 cut(s)	123, 549
BmgT120I	GGNCC	1 cut(s)	163
BmiI	GGNNCC	1 cut(s)	402
BmrFI	CCNGG	2 cut(s)	123, 549
BmrI	ACTGGG	1 cut(s)	468
BmuI	ACTGGG	1 cut(s)	468
BplI	GAGNNNNNCTC	4 cut(s)	227, 259, 437, 469
Bpu10I	CCTNAGC	2 cut(s)	315, 516
Bpu1102I	GCTNAGC	1 cut(s)	480
BsaAI	YACGTR	2 cut(s)	35, 90
BsaJI	CCNNGG	2 cut(s)	122, 548
Bse1I	ACTGG	3 cut(s)	100, 463, 535
BseBI	CCWGG	2 cut(s)	123, 549
BseDI	CCNNGG	2 cut(s)	122, 548
BseMII	CTCAG	4 cut(s)	88, 219, 258, 365
BseNI	ACTGG	3 cut(s)	100, 463, 535
BseXI	GCAGC	1 cut(s)	543
Bsh1236I	CGCG	1 cut(s)	545
BshFI	GGCC	2 cut(s)	164, 184
BsiHKAI	GWGCWC	1 cut(s)	131
BsmAI	GTCTC	1 cut(s)	77
BsmI	GAATGC	1 cut(s)	266
BsnI	GGCC	2 cut(s)	164, 184
Bsp1286I	GDGCHC	1 cut(s)	131
Bsp143I	GATC	1 cut(s)	208
Bsp1720I	GCTNAGC	1 cut(s)	480
BspACI	CCGC	1 cut(s)	311
BspANI	GGCC	2 cut(s)	164, 184
BspCNI	CTCAG	4 cut(s)	87, 220, 257, 364
BspFNI	CGCG	1 cut(s)	545
BspLI	GGNNCC	1 cut(s)	402
BspMAI	CTGCAG	1 cut(s)	533
BspMI	ACCTGC	1 cut(s)	205
BsrI	ACTGG	3 cut(s)	100, 463, 535
BssECI	CCNNGG	2 cut(s)	122, 548
BssMI	GATC	1 cut(s)	208
Bst2UI	CCWGG	2 cut(s)	123, 549
BstAPI	GCANNNNNTGC	1 cut(s)	512
BstBAI	YACGTR	2 cut(s)	35, 90
BstC8I	GCNNGC	1 cut(s)	477
BstDEI	CTNAG	7 cut(s)	74, 228, 244, 315, 351, 480, 516
BstFNI	CGCG	1 cut(s)	545
BstH2I	RGCGCY	1 cut(s)	358
BstHHI	GCGC	2 cut(s)	357, 547
BstKTI	GATC	1 cut(s)	211
BstMAI	GTCTC	1 cut(s)	77
BstMBI	GATC	1 cut(s)	208
BstMWI	GCNNNNNNNGC	3 cut(s)	316, 481, 512
BstNI	CCWGG	2 cut(s)	123, 549
BstSCI	CCNGG	2 cut(s)	121, 547
BstSFI	CTRYAG	1 cut(s)	529
BstUI	CGCG	1 cut(s)	545
BstV1I	GCAGC	1 cut(s)	543
BsuRI	GGCC	2 cut(s)	164, 184
BtgZI	GCGATG	1 cut(s)	526
BtsI	GCAGTG	1 cut(s)	112
BtsIMutI	CAGTG	2 cut(s)	112, 252
BveI	ACCTGC	1 cut(s)	205
Cac8I	GCNNGC	1 cut(s)	477
CfoI	GCGC	2 cut(s)	357, 547
Cfr13I	GGNCC	1 cut(s)	163
Csp6I	GTAC	2 cut(s)	11, 99
CviAII	CATG	1 cut(s)	289
CviQI	GTAC	2 cut(s)	11, 99
DdeI	CTNAG	7 cut(s)	74, 228, 244, 315, 351, 480, 516
DpnI	GATC	1 cut(s)	210
DpnII	GATC	1 cut(s)	208
DrdI	GACNNNNNNGTC	1 cut(s)	283
DseDI	GACNNNNNNGTC	1 cut(s)	283
Ecl136II	GAGCTC	1 cut(s)	129
Eco24I	GRGCYC	1 cut(s)	131
Eco47III	AGCGCT	1 cut(s)	356
Eco53kI	GAGCTC	1 cut(s)	129
Eco57I	CTGAAG	1 cut(s)	143
Eco72I	CACGTG	1 cut(s)	90
EcoICRI	GAGCTC	1 cut(s)	129
EcoO109I	RGGNCCY	1 cut(s)	163
EcoRII	CCWGG	2 cut(s)	121, 547
EcoT22I	ATGCAT	1 cut(s)	268
EcoT38I	GRGCYC	1 cut(s)	131
FaeI	CATG	1 cut(s)	292
FatI	CATG	1 cut(s)	288
FbaI	TGATCA	1 cut(s)	208
Fnu4HI	GCNGC	2 cut(s)	311, 532
FriOI	GRGCYC	1 cut(s)	131
Fsp4HI	GCNGC	2 cut(s)	311, 532
FspBI	CTAG	1 cut(s)	497
GlaI	GCGC	2 cut(s)	356, 546
GluI	GCNGC	2 cut(s)	311, 532
HaeII	RGCGCY	1 cut(s)	358
HaeIII	GGCC	2 cut(s)	164, 184
HhaI	GCGC	2 cut(s)	357, 547
Hin1II	CATG	1 cut(s)	292
Hin6I	GCGC	2 cut(s)	355, 545
HinP1I	GCGC	2 cut(s)	355, 545
HinfI	GANTC	3 cut(s)	56, 118, 522
Hpy166II	GTNNAC	3 cut(s)	13, 40, 93
Hpy188I	TCNGA	3 cut(s)	361, 429, 492
Hpy188III	TCNNGA	1 cut(s)	60
Hpy8I	GTNNAC	3 cut(s)	13, 40, 93
HpyAV	CCTTC	1 cut(s)	167
HpyCH4IV	ACGT	2 cut(s)	34, 89
HpyCH4V	TGCA	4 cut(s)	4, 266, 282, 531
HpyF10VI	GCNNNNNNNGC	3 cut(s)	316, 481, 512
HpyF3I	CTNAG	7 cut(s)	74, 228, 244, 315, 351, 480, 516
HpySE526I	ACGT	2 cut(s)	34, 89
Hsp92II	CATG	1 cut(s)	292
HspAI	GCGC	2 cut(s)	355, 545
Ksp22I	TGATCA	1 cut(s)	208
Kzo9I	GATC	1 cut(s)	208
LmnI	GCTCC	2 cut(s)	126, 134
Lsp1109I	GCAGC	1 cut(s)	543
MaeI	CTAG	1 cut(s)	497
MaeII	ACGT	2 cut(s)	34, 89
MalI	GATC	1 cut(s)	210
MboI	GATC	1 cut(s)	208
MboII	GAAGA	3 cut(s)	131, 140, 234
MhlI	GDGCHC	1 cut(s)	131
MluCI	AATT	1 cut(s)	468
MlyI	GAGTC	1 cut(s)	65
MnlI	CCTC	5 cut(s)	223, 319, 388, 439, 496
Mph1103I	ATGCAT	1 cut(s)	268
MroXI	GAANNNNTTC	1 cut(s)	366
MseI	TTAA	2 cut(s)	84, 174
MspR9I	CCNGG	2 cut(s)	123, 549
Mva1269I	GAATGC	1 cut(s)	266
MvaI	CCWGG	2 cut(s)	123, 549
MvnI	CGCG	1 cut(s)	545
MwoI	GCNNNNNNNGC	3 cut(s)	316, 481, 512
NdeII	GATC	1 cut(s)	208
NlaIII	CATG	1 cut(s)	292
NlaIV	GGNNCC	1 cut(s)	402
NsiI	ATGCAT	1 cut(s)	268
PaqCI	CACCTGC	1 cut(s)	205
PctI	GAATGC	1 cut(s)	266
PdmI	GAANNNNTTC	1 cut(s)	366
PfeI	GAWTC	2 cut(s)	118, 522
PkrI	GCNGC	2 cut(s)	312, 533
PleI	GAGTC	1 cut(s)	64
PmaCI	CACGTG	1 cut(s)	90
PmlI	CACGTG	1 cut(s)	90
PpsI	GAGTC	1 cut(s)	64
Ppu21I	YACGTR	2 cut(s)	35, 90
Psp124BI	GAGCTC	1 cut(s)	131
Psp6I	CCWGG	2 cut(s)	121, 547
PspCI	CACGTG	1 cut(s)	90
PspGI	CCWGG	2 cut(s)	121, 547
PspN4I	GGNNCC	1 cut(s)	402
PspPI	GGNCC	1 cut(s)	163
PstI	CTGCAG	1 cut(s)	533
RsaI	GTAC	2 cut(s)	12, 100
RsaNI	GTAC	2 cut(s)	11, 99
SacI	GAGCTC	1 cut(s)	131
SaqAI	TTAA	2 cut(s)	84, 174
SatI	GCNGC	2 cut(s)	311, 532
Sau3AI	GATC	1 cut(s)	208
Sau96I	GGNCC	1 cut(s)	163
SchI	GAGTC	1 cut(s)	65
ScrFI	CCNGG	2 cut(s)	123, 549
SduI	GDGCHC	1 cut(s)	131
SetI	ASST	9 cut(s)	37, 69, 92, 131, 202, 219, 254, 455, 486
SfcI	CTRYAG	1 cut(s)	529
SpeI	ACTAGT	1 cut(s)	496
Sse9I	AATT	1 cut(s)	468
SsiI	CCGC	1 cut(s)	311
SspI	AATATT	1 cut(s)	367
SspMI	CTAG	1 cut(s)	497
SstI	GAGCTC	1 cut(s)	131
StyD4I	CCNGG	2 cut(s)	121, 547
TaiI	ACGT	2 cut(s)	37, 92
TaqI	TCGA	1 cut(s)	525
TasI	AATT	1 cut(s)	468
TauI	GCSGC	1 cut(s)	313
TfiI	GAWTC	2 cut(s)	118, 522
Tru1I	TTAA	2 cut(s)	84, 174
Tru9I	TTAA	2 cut(s)	84, 174
TscAI	CASTG	2 cut(s)	112, 252
TseI	GCWGC	1 cut(s)	531
TspDTI	ATGAA	3 cut(s)	210, 273, 529
TspRI	CASTG	2 cut(s)	112, 252
XmnI	GAANNNNTTC	1 cut(s)	366
XspI	CTAG	1 cut(s)	497
Zsp2I	ATGCAT	1 cut(s)	268

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