Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007744

Physical Location & Seq

Genomic Coordinates Reverse (-)

23099167 .. 23105238

Gene Structure 6072 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG240000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGATGGCTTTGGTTCCTTTGGGTTCTGAGTTGGAGAGAATTATGGGATCTGTCCGCTTGTTGTACATAATCATTCTGTTGGCTACAACCAATGCGCTGCTCCATCTTCTAATTGCACTTTTGGTGGCCTATAATCCTATTAAGCCTTTTGAGTATTTGATGCATGAGTGTGCAATAGGCTTCTCAGGAATCTTGTTTTCTATGATTGTAATAGAGACAAGTCTGAGTGGACAGCAATACAGAAGTGTGTTTGGGCTCTTTAATGTGCCTGCTAAATGGTATGCATGGATCTTACTGGTAGTGTTCCAACTTGTTATGTCTAATGTTTCATTACTGGGACACCTGTGTGGTATTCTGTCTGGCTTCGCATATAGTTACGGCTTGTTCAATTTCCTCATTCCTGGACCATCCTTCTATTCCAAAATTGAGGCCTCCTCGTTGCTTTCAACTTGTGTGAGGCGGCCTAAATTTATTTTGTGCACTGGTGGAAATCCCTCTGCCTTCATCCCTACGTATTCAAGCCAAGGTACCACGTCTAGTGGATTGTTTTCGGGAAATTTGTGGAGAAACTTATCTTCATGGATCCCACAGAGGGAAACATCTTCACAGGCAACACAAGACAGTCACATATTTCCTGGGAGGGGTAGGACACTAGGGTCCGCTCAAGGTCAGGCTGTTTCTGATGTTGATTCAGAATCAAACTTACAGGCTAGACTGTTGGATAATAGTGACTCAGAACATCCATCTGATGCAGGACGGCAGTTATCTGATGGAAGGCAAACAGTAAATAATACGGTGGCAGCTGGAGCTGAAATTCCTGTTCACCATCAGGATTATGTGGCTTCTGAAGAAGAAATACAAAAGCTTGTATCAATGGGTTTTGAAAGGACACAGGTTGAAGTTGCACTAGCAGCTGCAGATGGTGATATTAATGTGGCAGTCGAAATTCTGAGCCAACAGGGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rhomboid UBA

Protein Analysis

321

Amino Acids

34.89

Weight (kDa)

5.34

Isoelectric Point (pI)

46.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rhomboid	PF01694	1 - 130	1.8e-16	Rhomboid domain
UBA	PF00627	283 - 317	7.2e-10	UBA/TS-N domain

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: OG0007744)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G58460 AT3G58460
fragaria_vesca	FvH4_6g21260 FvH4_6g21260 FvH4_6g21260 FvH4_6g21260 FvH4_6g21260 FvH4_6g21260 FvH4_6g21260
malus_domestica	MD12G1049100.v1.1 MD14G1048000.v1.1
prunus_persica	Prupe.7G087100_v2.0.a1
pyrus_communis	pycom12g04400 pycom14g03950
rosa_chinensis	RchiOBHm_Chr3g0477721
rosa_laevigata	RLG00000023695
rosa_multiflora	Rmu_sc0006187.1_g000017
rosa_roxburghii	Rroxscaffold_6G00403720
rosa_rugosa	Rorug03G0162900
rosa_samantha	Rh3AG213200 Rh3BG246900 Rh3CG240700 Rh3DG240000
rosa_wichuraiana	Rw3G019300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	655
Acc65I	GGTACC	1 cut(s)	527
AccB1I	GGYRCC	1 cut(s)	527
AccBSI	CCGCTC	1 cut(s)	662
AciI	CCGC	3 cut(s)	55, 460, 660
AclWI	GGATC	4 cut(s)	55, 296, 577, 590
AcsI	RAATTY	4 cut(s)	467, 556, 813, 945
AcuI	CTGAAG	1 cut(s)	867
AfaI	GTAC	2 cut(s)	65, 529
AfiI	CCNNNNNNNGG	2 cut(s)	592, 641
AgsI	TTSAA	5 cut(s)	388, 447, 519, 884, 899
AjiI	CACGTC	1 cut(s)	534
AjnI	CCWGG	2 cut(s)	400, 634
AleI	CACNNNNGTG	1 cut(s)	345
AluBI	AGCT	4 cut(s)	803, 809, 865, 914
AluI	AGCT	4 cut(s)	803, 809, 865, 914
Alw21I	GWGCWC	1 cut(s)	482
Alw26I	GTCTC	1 cut(s)	209
Alw44I	GTGCAC	1 cut(s)	478
AlwI	GGATC	4 cut(s)	55, 296, 577, 590
AoxI	GGCC	3 cut(s)	126, 429, 461
ApaLI	GTGCAC	1 cut(s)	478
ApeKI	GCWGC	4 cut(s)	97, 800, 911, 914
ApoI	RAATTY	4 cut(s)	467, 556, 813, 945
AseI	ATTAAT	1 cut(s)	930
Asp718I	GGTACC	1 cut(s)	527
AspLEI	GCGC	1 cut(s)	97
AspS9I	GGNCC	2 cut(s)	404, 657
AsuHPI	GGTGA	2 cut(s)	815, 935
AvaII	GGWCC	2 cut(s)	404, 657
BaeGI	GKGCMC	1 cut(s)	482
BamHI	GGATCC	1 cut(s)	582
BanI	GGYRCC	1 cut(s)	527
BanII	GRGCYC	1 cut(s)	258
BarI	GAAGNNNNNNTAC	2 cut(s)	840, 872
Bbv12I	GWGCWC	1 cut(s)	482
BbvI	GCAGC	4 cut(s)	84, 812, 901, 923
BccI	CCATC	6 cut(s)	111, 415, 751, 764, 834, 914
BceAI	ACGGC	2 cut(s)	394, 773
BciT130I	CCWGG	2 cut(s)	402, 636
BcoDI	GTCTC	1 cut(s)	209
BfaI	CTAG	4 cut(s)	537, 653, 711, 908
BfmI	CTRYAG	1 cut(s)	915
BisI	GCNGC	5 cut(s)	98, 461, 801, 912, 915
BlsI	GCNGC	5 cut(s)	99, 462, 802, 913, 916
Bme1390I	CCNGG	2 cut(s)	402, 636
Bme18I	GGWCC	2 cut(s)	404, 657
BmgBI	CACGTC	1 cut(s)	534
BmgT120I	GGNCC	2 cut(s)	404, 657
BmiI	GGNNCC	4 cut(s)	15, 529, 584, 658
BmrFI	CCNGG	2 cut(s)	402, 636
BmrI	ACTGGG	1 cut(s)	344
BmsI	GCATC	2 cut(s)	150, 739
BmuI	ACTGGG	1 cut(s)	344
BplI	GAGNNNNNCTC	2 cut(s)	419, 451
BpmI	CTGGAG	1 cut(s)	825
BpuEI	CTTGAG	1 cut(s)	648
BsaAI	YACGTR	1 cut(s)	513
BsaJI	CCNNGG	2 cut(s)	523, 635
Bsc4I	CCNNNNNNNGG	2 cut(s)	592, 641
Bse1I	ACTGG	3 cut(s)	300, 339, 487
BseBI	CCWGG	2 cut(s)	402, 636
BseDI	CCNNGG	2 cut(s)	523, 635
BseGI	GGATG	3 cut(s)	407, 504, 739
BseLI	CCNNNNNNNGG	2 cut(s)	592, 641
BseMII	CTCAG	5 cut(s)	18, 198, 215, 747, 941
BseNI	ACTGG	3 cut(s)	300, 339, 487
BseRI	GAGGAG	1 cut(s)	424
BseSI	GKGCMC	1 cut(s)	482
BseXI	GCAGC	4 cut(s)	84, 812, 901, 923
BshFI	GGCC	3 cut(s)	128, 431, 463
BshNI	GGYRCC	1 cut(s)	527
BsiHKAI	GWGCWC	1 cut(s)	482
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	2 cut(s)	592, 641
BsmAI	GTCTC	1 cut(s)	209
BsmFI	GGGAC	1 cut(s)	351
BsnI	GGCC	3 cut(s)	128, 431, 463
Bsp1286I	GDGCHC	2 cut(s)	258, 482
Bsp1407I	TGTACA	1 cut(s)	63
Bsp143I	GATC	3 cut(s)	47, 288, 582
BspACI	CCGC	3 cut(s)	55, 460, 660
BspANI	GGCC	3 cut(s)	128, 431, 463
BspCNI	CTCAG	5 cut(s)	19, 197, 216, 746, 942
BspLI	GGNNCC	4 cut(s)	15, 529, 584, 658
BspMAI	CTGCAG	1 cut(s)	919
BspPI	GGATC	4 cut(s)	55, 296, 577, 590
BspT107I	GGYRCC	1 cut(s)	527
BsrBI	CCGCTC	1 cut(s)	662
BsrGI	TGTACA	1 cut(s)	63
BsrI	ACTGG	3 cut(s)	300, 339, 487
BssECI	CCNNGG	2 cut(s)	523, 635
BssMI	GATC	3 cut(s)	47, 288, 582
BssT1I	CCWWGG	1 cut(s)	523
Bst2UI	CCWGG	2 cut(s)	402, 636
Bst4CI	ACNGT	4 cut(s)	623, 717, 784, 796
BstAUI	TGTACA	1 cut(s)	63
BstBAI	YACGTR	1 cut(s)	513
BstC8I	GCNNGC	1 cut(s)	270
BstDEI	CTNAG	5 cut(s)	27, 184, 224, 733, 950
BstF5I	GGATG	3 cut(s)	407, 504, 739
BstHHI	GCGC	1 cut(s)	97
BstKTI	GATC	3 cut(s)	50, 291, 585
BstMAI	GTCTC	1 cut(s)	209
BstMBI	GATC	3 cut(s)	47, 288, 582
BstMWI	GCNNNNNNNGC	2 cut(s)	806, 911
BstNI	CCWGG	2 cut(s)	402, 636
BstSCI	CCNGG	2 cut(s)	400, 634
BstSFI	CTRYAG	1 cut(s)	915
BstSLI	GKGCMC	1 cut(s)	482
BstSNI	TACGTA	1 cut(s)	513
BstV1I	GCAGC	4 cut(s)	84, 812, 901, 923
BstX2I	RGATCY	3 cut(s)	47, 288, 582
BstYI	RGATCY	3 cut(s)	47, 288, 582
BsuRI	GGCC	3 cut(s)	128, 431, 463
BtrI	CACGTC	1 cut(s)	534
BtsCI	GGATG	3 cut(s)	407, 504, 739
BtsIMutI	CAGTG	1 cut(s)	480
Cac8I	GCNNGC	1 cut(s)	270
CfoI	GCGC	1 cut(s)	97
Cfr13I	GGNCC	2 cut(s)	404, 657
Csp6I	GTAC	2 cut(s)	64, 528
CviAII	CATG	3 cut(s)	164, 285, 579
CviQI	GTAC	2 cut(s)	64, 528
DdeI	CTNAG	5 cut(s)	27, 184, 224, 733, 950
DpnI	GATC	3 cut(s)	49, 290, 584
DpnII	GATC	3 cut(s)	47, 288, 582
DrdI	GACNNNNNNGTC	1 cut(s)	655
DseDI	GACNNNNNNGTC	1 cut(s)	655
Eco105I	TACGTA	1 cut(s)	513
Eco130I	CCWWGG	1 cut(s)	523
Eco147I	AGGCCT	1 cut(s)	431
Eco24I	GRGCYC	1 cut(s)	258
Eco47I	GGWCC	2 cut(s)	404, 657
Eco57I	CTGAAG	1 cut(s)	867
EcoRII	CCWGG	2 cut(s)	400, 634
EcoT14I	CCWWGG	1 cut(s)	523
EcoT22I	ATGCAT	2 cut(s)	165, 286
EcoT38I	GRGCYC	1 cut(s)	258
ErhI	CCWWGG	1 cut(s)	523
FaeI	CATG	3 cut(s)	167, 288, 582
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	3 cut(s)	163, 284, 578
Fnu4HI	GCNGC	5 cut(s)	98, 461, 801, 912, 915
FokI	GGATG	3 cut(s)	394, 491, 726
FriOI	GRGCYC	1 cut(s)	258
Fsp4HI	GCNGC	5 cut(s)	98, 461, 801, 912, 915
FspBI	CTAG	4 cut(s)	537, 653, 711, 908
GlaI	GCGC	1 cut(s)	96
GluI	GCNGC	5 cut(s)	98, 461, 801, 912, 915
GsuI	CTGGAG	1 cut(s)	825
HaeIII	GGCC	3 cut(s)	128, 431, 463
HhaI	GCGC	1 cut(s)	97
Hin1II	CATG	3 cut(s)	167, 288, 582
Hin6I	GCGC	1 cut(s)	95
HinP1I	GCGC	1 cut(s)	95
HindIII	AAGCTT	1 cut(s)	863
HinfI	GANTC	4 cut(s)	189, 689, 695, 731
HphI	GGTGA	2 cut(s)	815, 935
Hpy166II	GTNNAC	3 cut(s)	230, 480, 823
Hpy188I	TCNGA	9 cut(s)	28, 225, 682, 694, 736, 748, 769, 847, 951
Hpy188III	TCNNGA	3 cut(s)	186, 552, 830
Hpy8I	GTNNAC	3 cut(s)	230, 480, 823
HpyAV	CCTTC	3 cut(s)	421, 511, 768
HpyCH4III	ACNGT	4 cut(s)	623, 717, 784, 796
HpyCH4IV	ACGT	2 cut(s)	512, 533
HpyCH4V	TGCA	8 cut(s)	116, 163, 173, 284, 480, 752, 905, 917
HpyF10VI	GCNNNNNNNGC	2 cut(s)	806, 911
HpyF3I	CTNAG	5 cut(s)	27, 184, 224, 733, 950
HpySE526I	ACGT	2 cut(s)	512, 533
Hsp92II	CATG	3 cut(s)	167, 288, 582
HspAI	GCGC	1 cut(s)	95
KpnI	GGTACC	1 cut(s)	531
Kzo9I	GATC	3 cut(s)	47, 288, 582
LmnI	GCTCC	2 cut(s)	105, 806
Lsp1109I	GCAGC	4 cut(s)	84, 812, 901, 923
LweI	GCATC	2 cut(s)	150, 739
MaeI	CTAG	4 cut(s)	537, 653, 711, 908
MaeII	ACGT	2 cut(s)	512, 533
MaeIII	GTNAC	3 cut(s)	374, 623, 728
MalI	GATC	3 cut(s)	49, 290, 584
MbiI	CCGCTC	1 cut(s)	662
MboI	GATC	3 cut(s)	47, 288, 582
MboII	GAAGA	5 cut(s)	98, 567, 594, 860, 863
MflI	RGATCY	3 cut(s)	47, 288, 582
MhlI	GDGCHC	2 cut(s)	258, 482
MluCI	AATT	8 cut(s)	39, 111, 388, 423, 467, 556, 813, 945
MlyI	GAGTC	1 cut(s)	725
MmeI	TCCRAC	3 cut(s)	12, 331, 699
MnlI	CCTC	8 cut(s)	404, 421, 442, 445, 450, 505, 585, 633
Mph1103I	ATGCAT	2 cut(s)	165, 286
MseI	TTAA	4 cut(s)	141, 261, 930, 964
MslI	CAYNNNNRTG	2 cut(s)	168, 345
MspA1I	CMGCKG	2 cut(s)	803, 914
MspR9I	CCNGG	2 cut(s)	402, 636
MvaI	CCWGG	2 cut(s)	402, 636
MwoI	GCNNNNNNNGC	2 cut(s)	806, 911
NdeII	GATC	3 cut(s)	47, 288, 582
NlaIII	CATG	3 cut(s)	167, 288, 582
NlaIV	GGNNCC	4 cut(s)	15, 529, 584, 658
NmuCI	GTSAC	2 cut(s)	623, 728
NsiI	ATGCAT	2 cut(s)	165, 286
OliI	CACNNNNGTG	1 cut(s)	345
PceI	AGGCCT	1 cut(s)	431
PfeI	GAWTC	3 cut(s)	189, 689, 695
PfoI	TCCNGGA	1 cut(s)	400
PkrI	GCNGC	5 cut(s)	99, 462, 802, 913, 916
PleI	GAGTC	1 cut(s)	725
PpsI	GAGTC	1 cut(s)	725
Ppu21I	YACGTR	1 cut(s)	513
PshBI	ATTAAT	1 cut(s)	930
Psp6I	CCWGG	2 cut(s)	400, 634
PspGI	CCWGG	2 cut(s)	400, 634
PspN4I	GGNNCC	4 cut(s)	15, 529, 584, 658
PspPI	GGNCC	2 cut(s)	404, 657
PstI	CTGCAG	1 cut(s)	919
PsuI	RGATCY	3 cut(s)	47, 288, 582
PvuII	CAGCTG	2 cut(s)	803, 914
RsaI	GTAC	2 cut(s)	65, 529
RsaNI	GTAC	2 cut(s)	64, 528
RseI	CAYNNNNRTG	2 cut(s)	168, 345
SaqAI	TTAA	4 cut(s)	141, 261, 930, 964
SatI	GCNGC	5 cut(s)	98, 461, 801, 912, 915
Sau3AI	GATC	3 cut(s)	47, 288, 582
Sau96I	GGNCC	2 cut(s)	404, 657
SchI	GAGTC	1 cut(s)	725
ScrFI	CCNGG	2 cut(s)	402, 636
SduI	GDGCHC	2 cut(s)	258, 482
SfaNI	GCATC	2 cut(s)	150, 739
SfcI	CTRYAG	1 cut(s)	915
SinI	GGWCC	2 cut(s)	404, 657
SmiMI	CAYNNNNRTG	2 cut(s)	168, 345
SmlI	CTYRAG	1 cut(s)	663
SmoI	CTYRAG	1 cut(s)	663
SnaBI	TACGTA	1 cut(s)	513
Sse9I	AATT	8 cut(s)	39, 111, 388, 423, 467, 556, 813, 945
SseBI	AGGCCT	1 cut(s)	431
SsiI	CCGC	3 cut(s)	55, 460, 660
SspMI	CTAG	4 cut(s)	537, 653, 711, 908
StuI	AGGCCT	1 cut(s)	431
StyD4I	CCNGG	2 cut(s)	400, 634
StyI	CCWWGG	1 cut(s)	523
TaaI	ACNGT	4 cut(s)	623, 717, 784, 796
TaiI	ACGT	2 cut(s)	515, 536
TaqI	TCGA	1 cut(s)	942
TasI	AATT	8 cut(s)	39, 111, 388, 423, 467, 556, 813, 945
TatI	WGTACW	1 cut(s)	63
TauI	GCSGC	1 cut(s)	463
TfiI	GAWTC	3 cut(s)	189, 689, 695
Tru1I	TTAA	4 cut(s)	141, 261, 930, 964
Tru9I	TTAA	4 cut(s)	141, 261, 930, 964
TscAI	CASTG	1 cut(s)	487
TseFI	GTSAC	2 cut(s)	623, 728
TseI	GCWGC	4 cut(s)	97, 800, 911, 914
Tsp45I	GTSAC	2 cut(s)	623, 728
TspDTI	ATGAA	3 cut(s)	318, 493, 567
TspRI	CASTG	1 cut(s)	487
VneI	GTGCAC	1 cut(s)	478
VpaK11BI	GGWCC	2 cut(s)	404, 657
VspI	ATTAAT	1 cut(s)	930
XapI	RAATTY	4 cut(s)	467, 556, 813, 945
XspI	CTAG	4 cut(s)	537, 653, 711, 908
Zsp2I	ATGCAT	2 cut(s)	165, 286

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