Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000356

Physical Location & Seq

Genomic Coordinates Forward (+)

92700402 .. 92713618

Gene Structure 13217 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG538800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGGCCTCTACTGCTAGTCTCAAATCCCCACTCCCTCAAACCGCTCCCTCAACGCCCCACCTTCCCCTTCCTCAACCACTCCACCTCCTCCCGCCCTCCACGCCGTCGTCTCACTCTCTCTCGCGCCCCATTGCTGCCTCTCTTAAGGAAAACCTGGGCCAGCTTGGGAAGACTTGGAACGATGTGACTAGCTTGAACAGCTGGGTTGTTCGGGACTATTACCACCTTGTCAATTCTGTCAACTCGTTAGAGCCACAATTACAGAGGCTCACTGATGCCCAGTTTACTGCTAAAACTGTTGAGTTCCGGTGGAAATTGGGACGAGGAGAGACACTTGCAAATATTCAAGCTGAGGCTTTTGCTGTTGTTCGTGAAGCTGCAAAACGGAAGCTTGGTAATTTTATGCCAGATTATTGGTGGGGAGTACAGCAGCATAGTTTCTCTGAGCTAATTGTAAACAAGGCAGGGGGTGAAAGTGGACCGCTTTTTCATTTTTATGTACATGAGGATGTGCGAACAATTGCCGATGCTACAATAGAGAAGGATGAGTGCCAACAAGAGCAGACATTGACTGGCCATGGTTGGAATGTGAAGAGTGTTGACTGGCTCTTATTTCCTCTGCTCATCTTCTACTTGCTATTCAATCTCTCCTGTGCAGCTGAAGCTGAAGATGAAAAAAATGTCACCAACATTGGAGCAATCATTGATGTTACTATTGGTACTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005215 GO:0005488 GO:0005524 GO:0006810 GO:0006996 GO:0008104 GO:0008144 GO:0008150 GO:0008320 GO:0008565 GO:0009657 GO:0009658 GO:0009987 GO:0010109 GO:0015031 GO:0015399 GO:0015405 GO:0015440 GO:0015450 GO:0015462 GO:0015833 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017076 GO:0017111 GO:0019222 GO:0022804 GO:0022857 GO:0022884 GO:0030554 GO:0031323 GO:0032553 GO:0032555 GO:0032559 GO:0033036 GO:0033220 GO:0035639 GO:0036094 GO:0042623 GO:0042626 GO:0042886 GO:0042887 GO:0043167 GO:0043168 GO:0043492 GO:0045184 GO:0050789 GO:0050794 GO:0051179 GO:0051234 GO:0055085 GO:0065007 GO:0071702 GO:0071705 GO:0071806 GO:0071840 GO:0097159 GO:0097367 GO:1901265 GO:1901363 GO:1904680

KEGG Pathways

Metabolic & Signaling

ko02024 ko03060 ko03070 map02024 map03060 map03070

Pfam Domains

Protein Families

SecA_DEAD SecA_PP_bind SecA_SW WD40 zf-RING_UBOX

Protein Analysis

241

Amino Acids

26.82

Weight (kDa)

5.73

Isoelectric Point (pI)

44.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SecA_DEAD	PF07517	67 - 133	1.9e-10	SecA DEAD-like 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: OG0000356)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13480 AT5G13480 AT5G13480 AT5G13480
fragaria_vesca	FvH4_4g16141 FvH4_5g25490 FvH4_5g25550 FvH4_6g22190 FvH4_6g23330 FvH4_7g02880
malus_domestica	MD02G1288700.v1.1 MD07G1038200.v1.1
prunus_persica	Prupe.2G034300_v2.0.a1
pyrus_communis	pycom02g24420 pycom07g02650
rosa_chinensis	RchiOBHm_Chr1g0323831 RchiOBHm_Chr3g0482821 RchiOBHm_Chr3g0482981 RchiOBHm_Chr3g0486211 RchiOBHm_Chr4g0404661 RchiOBHm_Chr5g0010661
rosa_laevigata	RLG00000012304 RLG00000017204 RLG00000017697 RLG00000020158 RLG00000030265 RLG00000031770 RLG00000035414
rosa_multiflora	Rmu_co8066382.1_g000001 Rmu_co8299121.1_g000001 Rmu_co8338957.1_g000001 Rmu_sc0001371.1_g000014 Rmu_sc0002634.1_g000006 Rmu_sc0004124.1_g000001 Rmu_sc0004540.1_g000008 Rmu_sc0006103.1_g000005 Rmu_sc0006571.1_g000003 Rmu_sc0006601.1_g000005 Rmu_sc0006601.1_g000008 Rmu_sc0006601.1_g000010 Rmu_sc0009883.1_g000005 Rmu_sc0011602.1_g000010 Rmu_sc0011602.1_g000011 Rmu_sc0012513.1_g000008 Rmu_sc0025336.1_g000001 Rmu_sc0026709.1_g000001 Rmu_ssc0000175.1_g000002 Rmu_ssc0000175.1_g000031
rosa_roxburghii	Rroxscaffold_1G00027770 Rroxscaffold_1G00065710 Rroxscaffold_3G00243370 Rroxscaffold_3G00243410 Rroxscaffold_3G00243440 Rroxscaffold_3G00243490 Rroxscaffold_4G00326390 Rroxscaffold_6G00398770 Rroxscaffold_6G00398910 Rroxscaffold_6G00398940
rosa_rugosa	Rorug01G0039800 Rorug01G0039900 Rorug03G0198000 Rorug03G0198100 Rorug03G0199200 Rorug04G0451600
rosa_samantha	Rh1AG057200 Rh1BG048200 Rh1CG058500 Rh1DG062300 Rh1DG062400 Rh2AG304100 Rh2CG002400 Rh2CG642500 Rh2DG328100 Rh3AG250000 Rh3BG285200 Rh3BG286000 Rh3CG284000 Rh3CG285400 Rh3CG307500 Rh3DG278700 Rh3DG279600 Rh3DG281000 Rh3DG303900 Rh4AG124300 Rh4BG118400 Rh4CG132400 Rh4CG132500 Rh4DG015900 Rh5AG083200 Rh5AG417500 Rh5AG538800 Rh5BG078500 Rh5BG447700 Rh5BG541600 Rh5BG541700 Rh5CG091200 Rh5CG564200 Rh5CG564300 Rh5DG078600 Rh5DG545800
rosa_wichuraiana	Rw0G000660 Rw0G022360 Rw1G004890 Rw3G022520 Rw3G022590 Rw3G022710 Rw3G024280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	44
AccII	CGCG	1 cut(s)	124
AciI	CCGC	3 cut(s)	42, 92, 482
AcoI	YGGCCR	1 cut(s)	574
AcuI	CTGAAG	2 cut(s)	681, 687
AfaI	GTAC	3 cut(s)	426, 501, 721
AflII	CTTAAG	1 cut(s)	143
AgsI	TTSAA	3 cut(s)	196, 347, 643
AjnI	CCWGG	1 cut(s)	153
AluBI	AGCT	9 cut(s)	163, 192, 201, 350, 377, 391, 448, 659, 665
AluI	AGCT	9 cut(s)	163, 192, 201, 350, 377, 391, 448, 659, 665
Alw26I	GTCTC	3 cut(s)	23, 114, 323
AoxI	GGCC	3 cut(s)	3, 157, 574
ApeKI	GCWGC	4 cut(s)	134, 377, 430, 656
AspLEI	GCGC	1 cut(s)	126
AspS9I	GGNCC	2 cut(s)	157, 479
AsuHPI	GGTGA	2 cut(s)	482, 676
AvaII	GGWCC	1 cut(s)	479
BalI	TGGCCA	1 cut(s)	576
BbsI	GAAGAC	1 cut(s)	176
BbvCI	CCTCAGC	1 cut(s)	351
BbvI	GCAGC	4 cut(s)	121, 364, 442, 668
BceAI	ACGGC	1 cut(s)	88
BciT130I	CCWGG	1 cut(s)	155
BcoDI	GTCTC	3 cut(s)	23, 114, 323
BfaI	CTAG	2 cut(s)	15, 189
BfrI	CTTAAG	1 cut(s)	143
BisI	GCNGC	4 cut(s)	135, 378, 431, 657
BlsI	GCNGC	4 cut(s)	136, 379, 432, 658
Bme1390I	CCNGG	1 cut(s)	155
Bme18I	GGWCC	1 cut(s)	479
BmgT120I	GGNCC	2 cut(s)	157, 479
BmrFI	CCNGG	1 cut(s)	155
BmrI	ACTGGG	1 cut(s)	274
BmsI	GCATC	2 cut(s)	265, 517
BmuI	ACTGGG	1 cut(s)	274
BpiI	GAAGAC	1 cut(s)	176
Bpu10I	CCTNAGC	1 cut(s)	351
BsaJI	CCNNGG	2 cut(s)	154, 577
BsaWI	WCCGGW	1 cut(s)	306
BsaXI	ACNNNNNCTCC	2 cut(s)	69, 99
Bse1I	ACTGG	3 cut(s)	280, 577, 608
Bse3DI	GCAATG	1 cut(s)	129
BseBI	CCWGG	1 cut(s)	155
BseDI	CCNNGG	2 cut(s)	154, 577
BseGI	GGATG	2 cut(s)	514, 550
BseMI	GCAATG	1 cut(s)	129
BseMII	CTCAG	2 cut(s)	342, 435
BseNI	ACTGG	3 cut(s)	280, 577, 608
BseRI	GAGGAG	2 cut(s)	77, 339
BseXI	GCAGC	4 cut(s)	121, 364, 442, 668
BseYI	CCCAGC	1 cut(s)	201
BsgI	GTGCAG	1 cut(s)	675
Bsh1236I	CGCG	1 cut(s)	124
BshFI	GGCC	3 cut(s)	5, 159, 576
BsiSI	CCGG	1 cut(s)	307
BslFI	GGGAC	2 cut(s)	227, 333
BsmAI	GTCTC	3 cut(s)	23, 114, 323
BsmBI	CGTCTC	1 cut(s)	114
BsmFI	GGGAC	2 cut(s)	227, 333
BsnI	GGCC	3 cut(s)	5, 159, 576
Bsp1407I	TGTACA	1 cut(s)	499
Bsp19I	CCATGG	1 cut(s)	577
BspACI	CCGC	3 cut(s)	42, 92, 482
BspANI	GGCC	3 cut(s)	5, 159, 576
BspCNI	CTCAG	2 cut(s)	343, 436
BspFNI	CGCG	1 cut(s)	124
BspTI	CTTAAG	1 cut(s)	143
BsrBI	CCGCTC	1 cut(s)	44
BsrDI	GCAATG	1 cut(s)	129
BsrGI	TGTACA	1 cut(s)	499
BsrI	ACTGG	3 cut(s)	280, 577, 608
BssECI	CCNNGG	2 cut(s)	154, 577
BssT1I	CCWWGG	1 cut(s)	577
Bst2UI	CCWGG	1 cut(s)	155
Bst4CI	ACNGT	1 cut(s)	298
Bst6I	CTCTTC	1 cut(s)	587
BstAFI	CTTAAG	1 cut(s)	143
BstAUI	TGTACA	1 cut(s)	499
BstC8I	GCNNGC	1 cut(s)	161
BstDEI	CTNAG	2 cut(s)	351, 444
BstDSI	CCRYGG	1 cut(s)	577
BstF5I	GGATG	2 cut(s)	514, 550
BstFNI	CGCG	1 cut(s)	124
BstHHI	GCGC	1 cut(s)	126
BstMAI	GTCTC	3 cut(s)	23, 114, 323
BstMWI	GCNNNNNNNGC	4 cut(s)	11, 100, 198, 662
BstNI	CCWGG	1 cut(s)	155
BstSCI	CCNGG	1 cut(s)	153
BstUI	CGCG	1 cut(s)	124
BstV1I	GCAGC	4 cut(s)	121, 364, 442, 668
BstV2I	GAAGAC	1 cut(s)	176
BstXI	CCANNNNNNTGG	1 cut(s)	414
BsuRI	GGCC	3 cut(s)	5, 159, 576
BtgI	CCRYGG	1 cut(s)	577
BtsCI	GGATG	2 cut(s)	514, 550
BtsIMutI	CAGTG	1 cut(s)	270
Cac8I	GCNNGC	1 cut(s)	161
CfoI	GCGC	1 cut(s)	126
Cfr13I	GGNCC	2 cut(s)	157, 479
Csp6I	GTAC	3 cut(s)	425, 500, 720
CviAII	CATG	2 cut(s)	503, 578
CviQI	GTAC	3 cut(s)	425, 500, 720
DdeI	CTNAG	2 cut(s)	351, 444
EaeI	YGGCCR	1 cut(s)	574
Eam1104I	CTCTTC	1 cut(s)	587
EarI	CTCTTC	1 cut(s)	587
Eco130I	CCWWGG	1 cut(s)	577
Eco47I	GGWCC	1 cut(s)	479
Eco57I	CTGAAG	2 cut(s)	681, 687
EcoRII	CCWGG	1 cut(s)	153
EcoT14I	CCWWGG	1 cut(s)	577
ErhI	CCWWGG	1 cut(s)	577
Esp3I	CGTCTC	1 cut(s)	114
FaeI	CATG	2 cut(s)	506, 581
FaiI	YATR	5 cut(s)	404, 435, 498, 504, 579
FaqI	GGGAC	2 cut(s)	227, 333
FatI	CATG	2 cut(s)	502, 577
FauI	CCCGC	1 cut(s)	99
Fnu4HI	GCNGC	4 cut(s)	135, 378, 431, 657
FokI	GGATG	2 cut(s)	521, 557
Fsp4HI	GCNGC	4 cut(s)	135, 378, 431, 657
FspBI	CTAG	2 cut(s)	15, 189
GlaI	GCGC	1 cut(s)	125
GluI	GCNGC	4 cut(s)	135, 378, 431, 657
GsaI	CCCAGC	1 cut(s)	205
HaeIII	GGCC	3 cut(s)	5, 159, 576
HapII	CCGG	1 cut(s)	307
HhaI	GCGC	1 cut(s)	126
Hin1II	CATG	2 cut(s)	506, 581
Hin6I	GCGC	1 cut(s)	124
HinP1I	GCGC	1 cut(s)	124
HincII	GTYRAC	2 cut(s)	241, 601
HindII	GTYRAC	2 cut(s)	241, 601
HindIII	AAGCTT	1 cut(s)	389
HpaII	CCGG	1 cut(s)	307
HphI	GGTGA	2 cut(s)	482, 676
Hpy166II	GTNNAC	5 cut(s)	241, 285, 457, 479, 601
Hpy188I	TCNGA	1 cut(s)	445
Hpy188III	TCNNGA	2 cut(s)	212, 371
Hpy8I	GTNNAC	5 cut(s)	241, 285, 457, 479, 601
Hpy99I	CGWCG	1 cut(s)	109
HpyAV	CCTTC	3 cut(s)	71, 77, 535
HpyCH4III	ACNGT	1 cut(s)	298
HpyCH4V	TGCA	3 cut(s)	338, 380, 656
HpyF10VI	GCNNNNNNNGC	4 cut(s)	11, 100, 198, 662
HpyF3I	CTNAG	2 cut(s)	351, 444
Hsp92II	CATG	2 cut(s)	506, 581
HspAI	GCGC	1 cut(s)	124
LmnI	GCTCC	2 cut(s)	49, 695
Lsp1109I	GCAGC	4 cut(s)	121, 364, 442, 668
LweI	GCATC	2 cut(s)	265, 517
MaeI	CTAG	2 cut(s)	15, 189
MaeIII	GTNAC	3 cut(s)	184, 682, 709
MbiI	CCGCTC	1 cut(s)	44
MboII	GAAGA	4 cut(s)	181, 604, 619, 680
MfeI	CAATTG	1 cut(s)	519
MlsI	TGGCCA	1 cut(s)	576
MluCI	AATT	6 cut(s)	232, 257, 314, 397, 450, 519
MluNI	TGGCCA	1 cut(s)	576
MmeI	TCCRAC	1 cut(s)	563
Mox20I	TGGCCA	1 cut(s)	576
MscI	TGGCCA	1 cut(s)	576
MseI	TTAA	1 cut(s)	144
MslI	CAYNNNNRTG	2 cut(s)	495, 507
Msp20I	TGGCCA	1 cut(s)	576
MspA1I	CMGCKG	2 cut(s)	201, 659
MspCI	CTTAAG	1 cut(s)	143
MspI	CCGG	1 cut(s)	307
MspR9I	CCNGG	1 cut(s)	155
MunI	CAATTG	1 cut(s)	519
MvaI	CCWGG	1 cut(s)	155
MvnI	CGCG	1 cut(s)	124
MwoI	GCNNNNNNNGC	4 cut(s)	11, 100, 198, 662
NcoI	CCATGG	1 cut(s)	577
NlaIII	CATG	2 cut(s)	506, 581
NmuCI	GTSAC	2 cut(s)	184, 682
PkrI	GCNGC	4 cut(s)	136, 379, 432, 658
Psp6I	CCWGG	1 cut(s)	153
PspFI	CCCAGC	1 cut(s)	201
PspGI	CCWGG	1 cut(s)	153
PspPI	GGNCC	2 cut(s)	157, 479
PvuII	CAGCTG	2 cut(s)	201, 659
RsaI	GTAC	3 cut(s)	426, 501, 721
RsaNI	GTAC	3 cut(s)	425, 500, 720
RseI	CAYNNNNRTG	2 cut(s)	495, 507
SaqAI	TTAA	1 cut(s)	144
SatI	GCNGC	4 cut(s)	135, 378, 431, 657
Sau96I	GGNCC	2 cut(s)	157, 479
ScrFI	CCNGG	1 cut(s)	155
SfaNI	GCATC	2 cut(s)	265, 517
SinI	GGWCC	1 cut(s)	479
SmiMI	CAYNNNNRTG	2 cut(s)	495, 507
SmlI	CTYRAG	1 cut(s)	143
SmoI	CTYRAG	1 cut(s)	143
Sse9I	AATT	6 cut(s)	232, 257, 314, 397, 450, 519
SsiI	CCGC	3 cut(s)	42, 92, 482
SspI	AATATT	1 cut(s)	343
SspMI	CTAG	2 cut(s)	15, 189
StyD4I	CCNGG	1 cut(s)	153
StyI	CCWWGG	1 cut(s)	577
TaaI	ACNGT	1 cut(s)	298
TasI	AATT	6 cut(s)	232, 257, 314, 397, 450, 519
TatI	WGTACW	2 cut(s)	424, 499
Tru1I	TTAA	1 cut(s)	144
Tru9I	TTAA	1 cut(s)	144
TscAI	CASTG	1 cut(s)	277
TseFI	GTSAC	2 cut(s)	184, 682
TseI	GCWGC	4 cut(s)	134, 377, 430, 656
Tsp45I	GTSAC	2 cut(s)	184, 682
TspDTI	ATGAA	2 cut(s)	479, 687
TspGWI	ACGGA	1 cut(s)	400
TspRI	CASTG	1 cut(s)	277
Vha464I	CTTAAG	1 cut(s)	143
VpaK11BI	GGWCC	1 cut(s)	479
XcmI	CCANNNNNNNNNTGG	1 cut(s)	414
XspI	CTAG	2 cut(s)	15, 189

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