Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003098

Physical Location & Seq

Genomic Coordinates Forward (+)

4524797 .. 4529562

Gene Structure 4766 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG060900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGTTTTTCATGTTTCTGGTAATGTTGTCTCAGATTTCTTTGAAGAGGAGGAAGCCAATCCGTTCTCGAATCATGGAAGCTTTGCTCCTGCCAAGAACTCCAGACTATCACCTCTGCCTCCAGAACGTGCTGGTTTCAATTATGGTGTTGGTGAAACCGTTGATATTCCTATTGATGGAAGTGGGGATTTGAAAAAGAGGGAGAGGGAACTCCAAGCTAAAGAAGCTGAACTGAGAAAGTGTGAAGAGATTGTAAAACGGAAAGAGGATGCTGCAGCACGAGCTGGAATTGTTCTGGAGGAAAAAAATTGGCCTCCTTTCTTTCCACTTATCCATCATGATATTGCAAACGAAATACCAATTCATTTACAAAGGGTGATGTATGTTGCATTTACAACATGGTTAGGAATTGTTGCTTGCCTATTCTGGAATATAATAGCTGTGACTACTGCCTGGATTAAGGGTGAAGGGGTGAAAATTTGGTTCCTTGCGGTTATATATTTCATTGCTGGGGCCCCTGGATCTTATGTGTCGTGGTACCGTCCTCTTTGCTGTGTGTTCAGGTCTGAGAGTGCTTTGAAGTACAGATGGTTTTTCATGTTTCTGATCCACATTGGCTTCTGCATCTTTGCTGCGGTTGCTCCCCCTATAATGTTCAAAGGAAAATCTCTCATTGGCGTTCTGGCTGCAATTGATATTCGAAGTGATCTTTGGTTAGGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005769 GO:0005794 GO:0005802 GO:0005886 GO:0006810 GO:0006897 GO:0006898 GO:0008150 GO:0012505 GO:0016020 GO:0016192 GO:0031410 GO:0031982 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0051179 GO:0051234 GO:0071944 GO:0097708 GO:0098657 GO:0098791

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SCAMP

Protein Analysis

240

Amino Acids

27.08

Weight (kDa)

6.6

Isoelectric Point (pI)

45.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SCAMP	PF04144	101 - 233	1.8e-41	SCAMP family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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

Orthologous Genes (Group: OG0003098)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G11180 AT1G11180 AT1G11180 AT1G61250 AT1G61250 AT2G20840 AT2G20840 AT2G20840
fragaria_vesca	FvH4_3g04440
malus_domestica	MD05G1323100.v1.1 MD10G1300900.v1.1
prunus_persica	Prupe.4G039500_v2.0.a1 Prupe.4G039500_v2.0.a1
pyrus_communis	pycom05g29740 pycom10g25380
rosa_chinensis	RchiOBHm_Chr5g0006841 RchiOBHm_Chr5g0006891 RchiOBHm_Chr5g0007151 RchiOBHm_Chr5g0007321
rosa_laevigata	RLG00000031433 RLG00000031444
rosa_multiflora	Rmu_sc0001044.1_g000035 Rmu_sc0001838.1_g000001 Rmu_sc0003826.1_g000003
rosa_roxburghii	Rroxscaffold_1G00069210
rosa_rugosa	Rorug04G0424900
rosa_samantha	Rh5AG052600 Rh5AG053300 Rh5BG051500 Rh5BG052300 Rh5CG060200 Rh5CG060900 Rh5CG062300 Rh5DG050800
rosa_wichuraiana	Rw5G005140 Rw5G005200 Rw5G005510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	537
AccB1I	GGYRCC	1 cut(s)	537
AciI	CCGC	2 cut(s)	491, 635
AclWI	GGATC	2 cut(s)	529, 601
AcsI	RAATTY	1 cut(s)	477
AfaI	GTAC	2 cut(s)	539, 584
AfiI	CCNNNNNNNGG	1 cut(s)	176
AgsI	TTSAA	5 cut(s)	44, 139, 193, 580, 658
AjnI	CCWGG	2 cut(s)	452, 517
AjuI	GAANNNNNNNTTGG	1 cut(s)	694
AluBI	AGCT	5 cut(s)	81, 218, 227, 284, 440
AluI	AGCT	5 cut(s)	81, 218, 227, 284, 440
Alw26I	GTCTC	1 cut(s)	34
AlwI	GGATC	2 cut(s)	529, 601
AoxI	GGCC	2 cut(s)	311, 513
ApaI	GGGCCC	1 cut(s)	517
ApeKI	GCWGC	4 cut(s)	272, 275, 632, 686
ApoI	RAATTY	1 cut(s)	477
Asp718I	GGTACC	1 cut(s)	537
AspS9I	GGNCC	2 cut(s)	513, 514
AsuHPI	GGTGA	5 cut(s)	102, 164, 388, 476, 484
AsuII	TTCGAA	1 cut(s)	700
BaeGI	GKGCMC	1 cut(s)	517
BanI	GGYRCC	1 cut(s)	537
BanII	GRGCYC	1 cut(s)	517
BauI	CACGAG	1 cut(s)	279
BbvI	GCAGC	4 cut(s)	259, 287, 619, 673
BccI	CCATC	3 cut(s)	170, 342, 582
BciT130I	CCWGG	2 cut(s)	454, 519
BcoDI	GTCTC	1 cut(s)	34
BfmI	CTRYAG	1 cut(s)	273
BisI	GCNGC	4 cut(s)	273, 276, 633, 687
BlsI	GCNGC	4 cut(s)	274, 277, 634, 688
Bme1390I	CCNGG	2 cut(s)	454, 519
BmgT120I	GGNCC	2 cut(s)	513, 514
BmiI	GGNNCC	5 cut(s)	485, 514, 515, 516, 539
BmrFI	CCNGG	2 cut(s)	454, 519
BmsI	GCATC	2 cut(s)	259, 633
BpmI	CTGGAG	3 cut(s)	85, 105, 317
Bpu14I	TTCGAA	1 cut(s)	700
BsaJI	CCNNGG	1 cut(s)	517
Bsc4I	CCNNNNNNNGG	1 cut(s)	176
Bse3DI	GCAATG	1 cut(s)	504
BseBI	CCWGG	2 cut(s)	454, 519
BseDI	CCNNGG	1 cut(s)	517
BseGI	GGATG	1 cut(s)	274
BseLI	CCNNNNNNNGG	1 cut(s)	176
BseMI	GCAATG	1 cut(s)	504
BseMII	CTCAG	3 cut(s)	45, 224, 558
BseRI	GAGGAG	1 cut(s)	62
BseSI	GKGCMC	1 cut(s)	517
BseXI	GCAGC	4 cut(s)	259, 287, 619, 673
BseYI	CCCAGC	1 cut(s)	509
BshFI	GGCC	2 cut(s)	313, 515
BshNI	GGYRCC	1 cut(s)	537
BslI	CCNNNNNNNGG	1 cut(s)	176
BsmAI	GTCTC	1 cut(s)	34
BsnI	GGCC	2 cut(s)	313, 515
Bsp119I	TTCGAA	1 cut(s)	700
Bsp120I	GGGCCC	1 cut(s)	513
Bsp1286I	GDGCHC	1 cut(s)	517
Bsp143I	GATC	3 cut(s)	521, 606, 706
BspACI	CCGC	2 cut(s)	491, 635
BspANI	GGCC	2 cut(s)	313, 515
BspCNI	CTCAG	3 cut(s)	44, 225, 559
BspHI	TCATGA	1 cut(s)	337
BspLI	GGNNCC	5 cut(s)	485, 514, 515, 516, 539
BspMAI	CTGCAG	1 cut(s)	277
BspPI	GGATC	2 cut(s)	529, 601
BspT104I	TTCGAA	1 cut(s)	700
BspT107I	GGYRCC	1 cut(s)	537
BsrDI	GCAATG	1 cut(s)	504
BssECI	CCNNGG	1 cut(s)	517
BssMI	GATC	3 cut(s)	521, 606, 706
BssSI	CACGAG	1 cut(s)	279
Bst2BI	CACGAG	1 cut(s)	279
Bst2UI	CCWGG	2 cut(s)	454, 519
Bst4CI	ACNGT	2 cut(s)	160, 542
Bst6I	CTCTTC	2 cut(s)	39, 240
BstBI	TTCGAA	1 cut(s)	700
BstC8I	GCNNGC	1 cut(s)	418
BstDEI	CTNAG	3 cut(s)	31, 233, 567
BstF5I	GGATG	1 cut(s)	274
BstKTI	GATC	3 cut(s)	524, 609, 709
BstMAI	GTCTC	1 cut(s)	34
BstMBI	GATC	3 cut(s)	521, 606, 706
BstMWI	GCNNNNNNNGC	3 cut(s)	224, 281, 638
BstNI	CCWGG	2 cut(s)	454, 519
BstSCI	CCNGG	2 cut(s)	452, 517
BstSFI	CTRYAG	1 cut(s)	273
BstSLI	GKGCMC	1 cut(s)	517
BstV1I	GCAGC	4 cut(s)	259, 287, 619, 673
BstX2I	RGATCY	1 cut(s)	521
BstYI	RGATCY	1 cut(s)	521
BsuRI	GGCC	2 cut(s)	313, 515
BtsCI	GGATG	1 cut(s)	274
Cac8I	GCNNGC	1 cut(s)	418
CciI	TCATGA	1 cut(s)	337
Cfr13I	GGNCC	2 cut(s)	513, 514
Csp6I	GTAC	2 cut(s)	538, 583
CviAII	CATG	5 cut(s)	11, 74, 338, 399, 598
CviQI	GTAC	2 cut(s)	538, 583
DdeI	CTNAG	3 cut(s)	31, 233, 567
DpnI	GATC	3 cut(s)	523, 608, 708
DpnII	GATC	3 cut(s)	521, 606, 706
Eam1104I	CTCTTC	2 cut(s)	39, 240
EarI	CTCTTC	2 cut(s)	39, 240
Eco24I	GRGCYC	1 cut(s)	517
EcoO109I	RGGNCCY	2 cut(s)	513, 514
EcoRII	CCWGG	2 cut(s)	452, 517
EcoT38I	GRGCYC	1 cut(s)	517
FaeI	CATG	5 cut(s)	14, 77, 341, 402, 601
FatI	CATG	5 cut(s)	10, 73, 337, 398, 597
Fnu4HI	GCNGC	4 cut(s)	273, 276, 633, 687
FokI	GGATG	1 cut(s)	281
FriOI	GRGCYC	1 cut(s)	517
Fsp4HI	GCNGC	4 cut(s)	273, 276, 633, 687
GluI	GCNGC	4 cut(s)	273, 276, 633, 687
GsaI	CCCAGC	1 cut(s)	513
GsuI	CTGGAG	3 cut(s)	85, 105, 317
HaeIII	GGCC	2 cut(s)	313, 515
Hin1II	CATG	5 cut(s)	14, 77, 341, 402, 601
HindIII	AAGCTT	1 cut(s)	79
HinfI	GANTC	1 cut(s)	70
HphI	GGTGA	5 cut(s)	102, 164, 388, 476, 484
Hpy188I	TCNGA	3 cut(s)	34, 568, 606
Hpy188III	TCNNGA	6 cut(s)	67, 102, 122, 296, 338, 427
HpyAV	CCTTC	1 cut(s)	461
HpyCH4III	ACNGT	2 cut(s)	160, 542
HpyCH4IV	ACGT	1 cut(s)	127
HpyCH4V	TGCA	5 cut(s)	275, 347, 389, 624, 689
HpyF10VI	GCNNNNNNNGC	3 cut(s)	224, 281, 638
HpyF3I	CTNAG	3 cut(s)	31, 233, 567
HpySE526I	ACGT	1 cut(s)	127
Hsp92II	CATG	5 cut(s)	14, 77, 341, 402, 601
KpnI	GGTACC	1 cut(s)	541
Kzo9I	GATC	3 cut(s)	521, 606, 706
LmnI	GCTCC	2 cut(s)	91, 646
Lsp1109I	GCAGC	4 cut(s)	259, 287, 619, 673
LweI	GCATC	2 cut(s)	259, 633
MaeII	ACGT	1 cut(s)	127
MaeIII	GTNAC	1 cut(s)	442
MalI	GATC	3 cut(s)	523, 608, 708
MboI	GATC	3 cut(s)	521, 606, 706
MboII	GAAGA	2 cut(s)	56, 257
MfeI	CAATTG	1 cut(s)	690
MflI	RGATCY	1 cut(s)	521
MhlI	GDGCHC	1 cut(s)	517
MluCI	AATT	7 cut(s)	139, 288, 307, 360, 408, 477, 690
MseI	TTAA	1 cut(s)	459
MspR9I	CCNGG	2 cut(s)	454, 519
MunI	CAATTG	1 cut(s)	690
MvaI	CCWGG	2 cut(s)	454, 519
MwoI	GCNNNNNNNGC	3 cut(s)	224, 281, 638
NdeII	GATC	3 cut(s)	521, 606, 706
NlaIII	CATG	5 cut(s)	14, 77, 341, 402, 601
NlaIV	GGNNCC	5 cut(s)	485, 514, 515, 516, 539
NmuCI	GTSAC	1 cut(s)	442
NspV	TTCGAA	1 cut(s)	700
PagI	TCATGA	1 cut(s)	337
PfeI	GAWTC	1 cut(s)	70
PkrI	GCNGC	4 cut(s)	274, 277, 634, 688
Psp6I	CCWGG	2 cut(s)	452, 517
PspFI	CCCAGC	1 cut(s)	509
PspGI	CCWGG	2 cut(s)	452, 517
PspN4I	GGNNCC	5 cut(s)	485, 514, 515, 516, 539
PspOMI	GGGCCC	1 cut(s)	513
PspPI	GGNCC	2 cut(s)	513, 514
PstI	CTGCAG	1 cut(s)	277
PsuI	RGATCY	1 cut(s)	521
RsaI	GTAC	2 cut(s)	539, 584
RsaNI	GTAC	2 cut(s)	538, 583
SaqAI	TTAA	1 cut(s)	459
SatI	GCNGC	4 cut(s)	273, 276, 633, 687
Sau3AI	GATC	3 cut(s)	521, 606, 706
Sau96I	GGNCC	2 cut(s)	513, 514
ScrFI	CCNGG	2 cut(s)	454, 519
SduI	GDGCHC	1 cut(s)	517
SetI	ASST	8 cut(s)	83, 115, 130, 220, 229, 286, 442, 566
SfaNI	GCATC	2 cut(s)	259, 633
SfcI	CTRYAG	1 cut(s)	273
SfuI	TTCGAA	1 cut(s)	700
Sse9I	AATT	7 cut(s)	139, 288, 307, 360, 408, 477, 690
SsiI	CCGC	2 cut(s)	491, 635
StyD4I	CCNGG	2 cut(s)	452, 517
TaaI	ACNGT	2 cut(s)	160, 542
TaiI	ACGT	1 cut(s)	130
TaqI	TCGA	2 cut(s)	68, 700
TasI	AATT	7 cut(s)	139, 288, 307, 360, 408, 477, 690
TatI	WGTACW	1 cut(s)	582
TfiI	GAWTC	1 cut(s)	70
Tru1I	TTAA	1 cut(s)	459
Tru9I	TTAA	1 cut(s)	459
TseFI	GTSAC	1 cut(s)	442
TseI	GCWGC	4 cut(s)	272, 275, 632, 686
Tsp45I	GTSAC	1 cut(s)	442
TspDTI	ATGAA	3 cut(s)	353, 493, 586
TspGWI	ACGGA	2 cut(s)	51, 274
XapI	RAATTY	1 cut(s)	477

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