Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0003958

Physical Location & Seq

Genomic Coordinates Reverse (-)

39178527 .. 39194243

Gene Structure 15717 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG220100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 804 bp

ATGAGAAAGATCAGAGGTTTCAAGCTCGGAAAACGACTCTGTCGGGTCACCCGATGGTTCTTCCTCAGAAAATCCACCACCCCAAAACGGATACCACCGGCTTTGCCCGCCTTCATCTCCGCCATGAAAGTACAAGTCGCTTCGCGCGAAGCTACTTACTTGAGGTTATTTGTTGTTTCTCAGGTGCTTTTTGACGAGAGGGTCATCTTGGCTCATCAATCAGGATTAGAAGCTTCCCAACCTGCTCTAACTCAATATCGGGTGCTTGGTCCTACGATGAATGAATGCTCATGGATTGAATTACAACCACTCACTAGCCGAAAGCATCAGGCTGAAGAACTAGCTGCGGCTCTAGCAGTAAGCAAGGGTCATCCTGTACAAAATGATATCAATGTGCGAGATATCCAAGTCCTTATAACAACAAATCTTGGTCGAAATTTACAAGGGATTCTAAAAGTGGATCTTGGAGTTGGAATATTGAAGCTAGAGTTAAGTTGGAGTATTGCTGGGAGCTTAACTGTGATACTAGCTGAGGAGTTTCACATCAGTTGCTTAAGGAATTTTGTTTTCTTGCATCTTACAGCAGAAACTCCCAAGGATACGTGGTTTTGTTGTGATGATAACAGTAGGATTCATGAGGCACTGATGAATCTTCAGATGATAAAGTCTAATGCTTTAAGCATGGGGAATAACCATGAGTATGATATGGCAGTTAAAGTTGAAAAGGTGGCTAAGTTGAAGGAATGGCAGGACGTGTGGGTCGAAATGGACTCAGCAATAGTTTTGAGAAGCAATTCTAAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001522 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009982 GO:0009987 GO:0010467 GO:0016070 GO:0016853 GO:0016866 GO:0031119 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_2

Protein Analysis

267

Amino Acids

30.27

Weight (kDa)

9.33

Isoelectric Point (pI)

37.43

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003958)

Species	Orthologous Gene IDs
malus_domestica	MD09G1046700.v1.1
pyrus_communis	pycom111g03710
rosa_chinensis	RchiOBHm_Chr6g0247011 RchiOBHm_Chr6g0267921 RchiOBHm_Chr6g0283081 RchiOBHm_Chr7g0224431
rosa_laevigata	RLG00000033406
rosa_multiflora	Rmu_co8039672.1_g000001
rosa_roxburghii	Rroxscaffold_1G00052870 Rroxscaffold_1G00056630 Rroxscaffold_7G00200330
rosa_rugosa	Rorug01G0308200 Rorug05G0026500 Rorug06G0035300
rosa_samantha	Rh1CG188000 Rh1CG188100 Rh3BG368100 Rh3CG241300 Rh6AG192600 Rh6BG158200 Rh6BG158500 Rh6CG157800 Rh6CG158000 Rh6CG195900 Rh6DG143400 Rh6DG143500 Rh6DG143800 Rh6DG143900 Rh6DG144200 Rh6DG164200 Rh6DG220100
rosa_wichuraiana	Rw3G019330 Rw6G013640 Rw6G013670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	416
AasI	GACNNNNNNGTC	2 cut(s)	200, 758
Acc36I	ACCTGC	1 cut(s)	250
AccII	CGCG	2 cut(s)	145, 147
AciI	CCGC	3 cut(s)	108, 120, 347
AclWI	GGATC	1 cut(s)	468
AcsI	RAATTY	2 cut(s)	436, 559
AcuI	CTGAAG	2 cut(s)	354, 638
AfaI	GTAC	2 cut(s)	132, 378
AfiI	CCNNNNNNNGG	1 cut(s)	87
AflII	CTTAAG	1 cut(s)	553
AflIII	ACRYGT	1 cut(s)	753
AgsI	TTSAA	5 cut(s)	22, 299, 481, 722, 739
AjiI	CACGTC	1 cut(s)	754
AluBI	AGCT	7 cut(s)	25, 152, 233, 344, 484, 513, 530
AluI	AGCT	7 cut(s)	25, 152, 233, 344, 484, 513, 530
AlwI	GGATC	1 cut(s)	468
ApeKI	GCWGC	1 cut(s)	344
ApoI	RAATTY	2 cut(s)	436, 559
Asp700I	GAANNNNTTC	1 cut(s)	793
AspLEI	GCGC	1 cut(s)	147
AspS9I	GGNCC	1 cut(s)	269
AsuHPI	GGTGA	1 cut(s)	40
AvaII	GGWCC	1 cut(s)	269
BbvCI	CCTCAGC	1 cut(s)	531
BbvI	GCAGC	1 cut(s)	331
BccI	CCATC	1 cut(s)	48
BciVI	GTATCC	2 cut(s)	84, 592
BfaI	CTAG	5 cut(s)	315, 341, 353, 485, 527
BfrI	CTTAAG	1 cut(s)	553
BfuAI	ACCTGC	1 cut(s)	250
BfuI	GTATCC	2 cut(s)	84, 592
BisI	GCNGC	2 cut(s)	345, 348
BlsI	GCNGC	2 cut(s)	346, 349
Bme18I	GGWCC	1 cut(s)	269
BmgBI	CACGTC	1 cut(s)	754
BmgT120I	GGNCC	1 cut(s)	269
BmsI	GCATC	2 cut(s)	334, 583
Bpu10I	CCTNAGC	1 cut(s)	531
BpuEI	CTTGAG	1 cut(s)	181
BsaAI	YACGTR	1 cut(s)	603
BsaJI	CCNNGG	1 cut(s)	594
Bsc4I	CCNNNNNNNGG	1 cut(s)	87
Bse118I	RCCGGY	1 cut(s)	97
BseDI	CCNNGG	1 cut(s)	594
BseGI	GGATG	1 cut(s)	370
BseLI	CCNNNNNNNGG	1 cut(s)	87
BseMII	CTCAG	4 cut(s)	79, 194, 522, 786
BseRI	GAGGAG	1 cut(s)	548
BseXI	GCAGC	1 cut(s)	331
BseYI	CCCAGC	1 cut(s)	506
Bsh1236I	CGCG	2 cut(s)	145, 147
BsiSI	CCGG	1 cut(s)	98
BslI	CCNNNNNNNGG	1 cut(s)	87
BsmI	GAATGC	1 cut(s)	290
Bsp1407I	TGTACA	1 cut(s)	376
Bsp143I	GATC	2 cut(s)	9, 460
BspACI	CCGC	3 cut(s)	108, 120, 347
BspCNI	CTCAG	4 cut(s)	78, 193, 523, 785
BspFNI	CGCG	2 cut(s)	145, 147
BspHI	TCATGA	1 cut(s)	634
BspMI	ACCTGC	1 cut(s)	250
BspPI	GGATC	1 cut(s)	468
BspTI	CTTAAG	1 cut(s)	553
BsrFI	RCCGGY	1 cut(s)	97
BsrGI	TGTACA	1 cut(s)	376
BssAI	RCCGGY	1 cut(s)	97
BssECI	CCNNGG	1 cut(s)	594
BssMI	GATC	2 cut(s)	9, 460
BssT1I	CCWWGG	1 cut(s)	594
Bst4CI	ACNGT	2 cut(s)	520, 626
BstAFI	CTTAAG	1 cut(s)	553
BstAUI	TGTACA	1 cut(s)	376
BstBAI	YACGTR	1 cut(s)	603
BstC8I	GCNNGC	1 cut(s)	108
BstDEI	CTNAG	5 cut(s)	65, 180, 531, 732, 772
BstEII	GGTNACC	1 cut(s)	46
BstF5I	GGATG	1 cut(s)	370
BstFNI	CGCG	2 cut(s)	145, 147
BstHHI	GCGC	1 cut(s)	147
BstKTI	GATC	2 cut(s)	12, 463
BstMBI	GATC	2 cut(s)	9, 460
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 353
BstPI	GGTNACC	1 cut(s)	46
BstUI	CGCG	2 cut(s)	145, 147
BstV1I	GCAGC	1 cut(s)	331
BstX2I	RGATCY	1 cut(s)	460
BstYI	RGATCY	1 cut(s)	460
BsuI	GTATCC	2 cut(s)	84, 592
BtrI	CACGTC	1 cut(s)	754
BtsCI	GGATG	1 cut(s)	370
BtsIMutI	CAGTG	1 cut(s)	641
BveI	ACCTGC	1 cut(s)	250
Cac8I	GCNNGC	1 cut(s)	108
CciI	TCATGA	1 cut(s)	634
CfoI	GCGC	1 cut(s)	147
Cfr10I	RCCGGY	1 cut(s)	97
Cfr13I	GGNCC	1 cut(s)	269
Csp6I	GTAC	2 cut(s)	131, 377
CspCI	CAANNNNNGTGG	2 cut(s)	84, 119
CviAII	CATG	5 cut(s)	124, 291, 635, 682, 695
CviQI	GTAC	2 cut(s)	131, 377
DdeI	CTNAG	5 cut(s)	65, 180, 531, 732, 772
DpnI	GATC	2 cut(s)	11, 462
DpnII	GATC	2 cut(s)	9, 460
DrdI	GACNNNNNNGTC	2 cut(s)	200, 758
DseDI	GACNNNNNNGTC	2 cut(s)	200, 758
EciI	GGCGGA	1 cut(s)	109
Eco130I	CCWWGG	1 cut(s)	594
Eco32I	GATATC	2 cut(s)	388, 403
Eco47I	GGWCC	1 cut(s)	269
Eco57I	CTGAAG	2 cut(s)	354, 638
Eco91I	GGTNACC	1 cut(s)	46
EcoO65I	GGTNACC	1 cut(s)	46
EcoRV	GATATC	2 cut(s)	388, 403
EcoT14I	CCWWGG	1 cut(s)	594
ErhI	CCWWGG	1 cut(s)	594
FaeI	CATG	5 cut(s)	127, 294, 638, 685, 698
FaiI	YATR	8 cut(s)	125, 292, 416, 636, 683, 696, 702, 707
FalI	AAGNNNNNCTT	2 cut(s)	447, 479
FatI	CATG	5 cut(s)	123, 290, 634, 681, 694
FauI	CCCGC	1 cut(s)	115
Fnu4HI	GCNGC	2 cut(s)	345, 348
FokI	GGATG	1 cut(s)	357
Fsp4HI	GCNGC	2 cut(s)	345, 348
FspBI	CTAG	5 cut(s)	315, 341, 353, 485, 527
GlaI	GCGC	1 cut(s)	146
GluI	GCNGC	2 cut(s)	345, 348
GsaI	CCCAGC	1 cut(s)	510
HapII	CCGG	1 cut(s)	98
HhaI	GCGC	1 cut(s)	147
Hin1II	CATG	5 cut(s)	127, 294, 638, 685, 698
Hin6I	GCGC	1 cut(s)	145
HinP1I	GCGC	1 cut(s)	145
HindIII	AAGCTT	1 cut(s)	231
HinfI	GANTC	5 cut(s)	36, 448, 631, 649, 770
HpaII	CCGG	1 cut(s)	98
HphI	GGTGA	1 cut(s)	40
Hpy188I	TCNGA	4 cut(s)	14, 29, 68, 657
Hpy188III	TCNNGA	2 cut(s)	222, 635
HpyAV	CCTTC	2 cut(s)	121, 733
HpyCH4III	ACNGT	2 cut(s)	520, 626
HpyCH4IV	ACGT	2 cut(s)	602, 753
HpyCH4V	TGCA	1 cut(s)	574
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 353
HpyF3I	CTNAG	5 cut(s)	65, 180, 531, 732, 772
HpySE526I	ACGT	2 cut(s)	602, 753
Hsp92II	CATG	5 cut(s)	127, 294, 638, 685, 698
HspAI	GCGC	1 cut(s)	145
Kzo9I	GATC	2 cut(s)	9, 460
LmnI	GCTCC	1 cut(s)	510
LpnPI	CCDG	8 cut(s)	111, 167, 207, 255, 314, 387, 492, 734
Lsp1109I	GCAGC	1 cut(s)	331
LweI	GCATC	2 cut(s)	334, 583
MaeI	CTAG	5 cut(s)	315, 341, 353, 485, 527
MaeII	ACGT	2 cut(s)	602, 753
MaeIII	GTNAC	1 cut(s)	46
MalI	GATC	2 cut(s)	11, 462
MboI	GATC	2 cut(s)	9, 460
MboII	GAAGA	3 cut(s)	52, 347, 644
MflI	RGATCY	1 cut(s)	460
MluCI	AATT	4 cut(s)	299, 436, 559, 793
MlyI	GAGTC	2 cut(s)	30, 764
MmeI	TCCRAC	2 cut(s)	451, 476
MnlI	CCTC	6 cut(s)	8, 74, 156, 192, 526, 631
MroXI	GAANNNNTTC	1 cut(s)	793
MseI	TTAA	5 cut(s)	491, 515, 554, 677, 714
MslI	CAYNNNNRTG	1 cut(s)	699
MspCI	CTTAAG	1 cut(s)	553
MspI	CCGG	1 cut(s)	98
Mva1269I	GAATGC	1 cut(s)	290
MvnI	CGCG	2 cut(s)	145, 147
MwoI	GCNNNNNNNGC	2 cut(s)	107, 353
NdeII	GATC	2 cut(s)	9, 460
NlaIII	CATG	5 cut(s)	127, 294, 638, 685, 698
NmuCI	GTSAC	1 cut(s)	46
PagI	TCATGA	1 cut(s)	634
PcsI	WCGNNNNNNNCGW	3 cut(s)	49, 144, 759
PctI	GAATGC	1 cut(s)	290
PdmI	GAANNNNTTC	1 cut(s)	793
PfeI	GAWTC	3 cut(s)	448, 631, 649
PflFI	GACNNNGTC	1 cut(s)	39
PkrI	GCNGC	2 cut(s)	346, 349
PleI	GAGTC	2 cut(s)	30, 764
PpsI	GAGTC	2 cut(s)	30, 764
Ppu21I	YACGTR	1 cut(s)	603
PsiI	TTATAA	1 cut(s)	416
PspEI	GGTNACC	1 cut(s)	46
PspFI	CCCAGC	1 cut(s)	506
PspPI	GGNCC	1 cut(s)	269
PsuI	RGATCY	1 cut(s)	460
PsyI	GACNNNGTC	1 cut(s)	39
RsaI	GTAC	2 cut(s)	132, 378
RsaNI	GTAC	2 cut(s)	131, 377
RseI	CAYNNNNRTG	1 cut(s)	699
SaqAI	TTAA	5 cut(s)	491, 515, 554, 677, 714
SatI	GCNGC	2 cut(s)	345, 348
Sau3AI	GATC	2 cut(s)	9, 460
Sau96I	GGNCC	1 cut(s)	269
SchI	GAGTC	2 cut(s)	30, 764
SfaNI	GCATC	2 cut(s)	334, 583
SinI	GGWCC	1 cut(s)	269
SmiMI	CAYNNNNRTG	1 cut(s)	699
SmlI	CTYRAG	2 cut(s)	160, 553
SmoI	CTYRAG	2 cut(s)	160, 553
Sse9I	AATT	4 cut(s)	299, 436, 559, 793
SsiI	CCGC	3 cut(s)	108, 120, 347
SspI	AATATT	1 cut(s)	477
SspMI	CTAG	5 cut(s)	315, 341, 353, 485, 527
StyI	CCWWGG	1 cut(s)	594
TaaI	ACNGT	2 cut(s)	520, 626
TaiI	ACGT	2 cut(s)	605, 756
TaqI	TCGA	2 cut(s)	433, 762
TasI	AATT	4 cut(s)	299, 436, 559, 793
TatI	WGTACW	2 cut(s)	130, 376
TauI	GCSGC	1 cut(s)	350
TfiI	GAWTC	3 cut(s)	448, 631, 649
Tru1I	TTAA	5 cut(s)	491, 515, 554, 677, 714
Tru9I	TTAA	5 cut(s)	491, 515, 554, 677, 714
TscAI	CASTG	1 cut(s)	648
TseFI	GTSAC	1 cut(s)	46
TseI	GCWGC	1 cut(s)	344
Tsp45I	GTSAC	1 cut(s)	46
TspDTI	ATGAA	6 cut(s)	103, 140, 293, 297, 623, 662
TspGWI	ACGGA	1 cut(s)	103
TspRI	CASTG	1 cut(s)	648
Tth111I	GACNNNGTC	1 cut(s)	39
Vha464I	CTTAAG	1 cut(s)	553
VpaK11BI	GGWCC	1 cut(s)	269
XapI	RAATTY	2 cut(s)	436, 559
XmnI	GAANNNNTTC	1 cut(s)	793
XspI	CTAG	5 cut(s)	315, 341, 353, 485, 527

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