Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0005400

Physical Location & Seq

Genomic Coordinates Reverse (-)

54806215 .. 54808930

Gene Structure 2716 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG241400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 993 bp

ATGAAGGAGAGGGATAGGCAGAAGCTTCTGGAGCAAACGAGGTTGGAGGATGAGTCTGATGTAGTTTTCAGGGCAGCTACAGGTAAATGGCGGGCAGTTGTAGTAGACATTTCTAGAATGCACAAAACAGGTAGCCATGTACTTGTTGGCACAACCAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGGTTCTCAACGCAAAACCAGAGAATGTGGAGAGGGAAGCAGAAATTGTGGCACAAAGCAGTCGTTTAGGGGCAGTTACTATTGCAACCAATATGGCAGGTCGAGGAACAGACATAATCCTTGGTGGGAATGCAGAATTTATGGCGAGAGTTGTAAAACTAACTGAAGGAGGTTATGTCTCAGTGAAAAAACTTCCGCTGAAAAAATCCTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGTTGAAACTTGGGGTCAGAGATCATTGACAAAGCTTGAAGCAGAGGAGCGTCTTTCTTATTCTTGCGAAAAGGGACCTGCTTTGGATGAAGTGATAGCCAAACTGTGGAGTGCTTTTTTAGAAATCATGAAAGAATATAAGGGCTACACAAAGGAAGAAAGGAAGAAGGTTGTGTCAGCTGGTGGACTTCATGTTGTCGGGACAAAACGCCATGAATCTCGCCGAGTTGATAATCAGTTACATGGTCGAATTGGACGACAGGGGGATCCTGGAAGTTCACGCTTCTTCTTAAGTCTTGAAGATAACATCTTTCGTATATTTGGTGGAGATCGTATTAAGGGTTTAATGAGAGCTTTTAGAGTTGAGGACTTGCCAATTGAGTCCAAGATGCTGACCAAAGCACTAGATGAAGCTCAGCGGAAAGTGGAAAACTATTTTTTTGATATTCGAAAGCAATTGTTTGAATTTGATGAAGTCCTAAACAGCTAA

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:0008104 GO:0008144 GO:0008150 GO:0008320 GO:0008565 GO:0015031 GO:0015399 GO:0015405 GO:0015440 GO:0015450 GO:0015462 GO:0015833 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017076 GO:0017111 GO:0022804 GO:0022857 GO:0022884 GO:0030554 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:0051179 GO:0051234 GO:0055085 GO:0071702 GO:0071705 GO:0071806 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

Protein Analysis

330

Amino Acids

37.31

Weight (kDa)

8.64

Isoelectric Point (pI)

36.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	16 - 291	3.6e-75	SecA P-loop domain
SecA_SW	PF07516	293 - 329	1.5e-11	SecA Wing and Scaffold domain

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: OG0005400)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01800 AT4G01800 AT4G01800
fragaria_vesca	FvH4_1g26240
malus_domestica	MD17G1285000.v1.1
prunus_persica	Prupe.3G002700_v2.0.a1
pyrus_communis	pycom09g19850 pycom17g28080 pycom17g28090
rosa_chinensis	RchiOBHm_Chr3g0485781
rosa_laevigata	RLG00000023125
rosa_multiflora	Rmu_co8471925.1_g000001 Rmu_sc0012870.1_g000002
rosa_roxburghii	Rroxscaffold_2G00123840
rosa_rugosa	Rorug03G0221400
rosa_samantha	Rh1AG180100 Rh1CG167100 Rh3AG270700 Rh3BG306200 Rh3BG306300 Rh3CG304600 Rh3DG300700 Rh4AG241300 Rh4AG241400 Rh4BG244600 Rh4BG244700 Rh4CG255400 Rh7CG119700
rosa_wichuraiana	Rw3G024110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	302, 589
AccB7I	CCANNNNNTGG	1 cut(s)	609
AccI	GTMKAC	1 cut(s)	105
AciI	CCGC	3 cut(s)	91, 410, 922
AclWI	GGATC	2 cut(s)	764, 777
AcsI	RAATTY	3 cut(s)	350, 496, 968
AcuI	CTGAAG	1 cut(s)	399
AfaI	GTAC	1 cut(s)	141
AfiI	CCNNNNNNNGG	1 cut(s)	609
AflII	CTTAAG	1 cut(s)	793
AgsI	TTSAA	4 cut(s)	509, 542, 803, 968
AhdI	GACNNNNNGTC	1 cut(s)	178
AjnI	CCWGG	2 cut(s)	422, 772
Alw26I	GTCTC	1 cut(s)	397
AlwI	GGATC	2 cut(s)	764, 777
ApeKI	GCWGC	1 cut(s)	74
ApoI	RAATTY	3 cut(s)	350, 496, 968
AspS9I	GGNCC	1 cut(s)	578
AsuII	TTCGAA	1 cut(s)	952
AvaII	GGWCC	1 cut(s)	578
BamHI	GGATCC	1 cut(s)	769
BbvCI	CCTCAGC	1 cut(s)	483
BbvI	GCAGC	1 cut(s)	86
BciT130I	CCWGG	2 cut(s)	424, 774
BcoDI	GTCTC	1 cut(s)	397
BfaI	CTAG	2 cut(s)	114, 908
BfmI	CTRYAG	1 cut(s)	78
BfrI	CTTAAG	1 cut(s)	793
BfuAI	ACCTGC	2 cut(s)	302, 589
BisI	GCNGC	1 cut(s)	75
BlpI	GCTNAGC	1 cut(s)	918
BlsI	GCNGC	1 cut(s)	76
Bme1390I	CCNGG	2 cut(s)	424, 774
Bme18I	GGWCC	1 cut(s)	578
BmeRI	GACNNNNNGTC	1 cut(s)	178
BmgT120I	GGNCC	1 cut(s)	578
BmiI	GGNNCC	2 cut(s)	579, 771
BmrFI	CCNGG	2 cut(s)	424, 774
BmsI	GCATC	1 cut(s)	882
BpmI	CTGGAG	1 cut(s)	50
Bpu10I	CCTNAGC	1 cut(s)	483
Bpu1102I	GCTNAGC	1 cut(s)	918
Bpu14I	TTCGAA	1 cut(s)	952
BsaJI	CCNNGG	1 cut(s)	334
BsaXI	ACNNNNNCTCC	4 cut(s)	38, 68, 375, 405
Bsc4I	CCNNNNNNNGG	1 cut(s)	609
Bse1I	ACTGG	1 cut(s)	156
BseBI	CCWGG	2 cut(s)	424, 774
BseDI	CCNNGG	1 cut(s)	334
BseGI	GGATG	2 cut(s)	55, 595
BseLI	CCNNNNNNNGG	1 cut(s)	609
BseMII	CTCAG	4 cut(s)	174, 408, 474, 932
BseNI	ACTGG	1 cut(s)	156
BseRI	GAGGAG	1 cut(s)	563
BseXI	GCAGC	1 cut(s)	86
BslFI	GGGAC	2 cut(s)	591, 718
BslI	CCNNNNNNNGG	1 cut(s)	609
BsmAI	GTCTC	1 cut(s)	397
BsmFI	GGGAC	2 cut(s)	591, 718
BsmI	GAATGC	3 cut(s)	123, 204, 349
Bsp119I	TTCGAA	1 cut(s)	952
Bsp143I	GATC	3 cut(s)	524, 769, 832
Bsp1720I	GCTNAGC	1 cut(s)	918
BspACI	CCGC	3 cut(s)	91, 410, 922
BspCNI	CTCAG	4 cut(s)	175, 407, 475, 931
BspHI	TCATGA	1 cut(s)	630
BspLI	GGNNCC	2 cut(s)	579, 771
BspMI	ACCTGC	2 cut(s)	302, 589
BspPI	GGATC	2 cut(s)	764, 777
BspT104I	TTCGAA	1 cut(s)	952
BspTI	CTTAAG	1 cut(s)	793
BsrI	ACTGG	1 cut(s)	156
BssECI	CCNNGG	1 cut(s)	334
BssMI	GATC	3 cut(s)	524, 769, 832
BssT1I	CCWWGG	1 cut(s)	334
Bst2UI	CCWGG	2 cut(s)	424, 774
Bst4CI	ACNGT	2 cut(s)	459, 609
BstAFI	CTTAAG	1 cut(s)	793
BstBI	TTCGAA	1 cut(s)	952
BstC8I	GCNNGC	1 cut(s)	93
BstDEI	CTNAG	4 cut(s)	183, 394, 483, 918
BstF5I	GGATG	2 cut(s)	55, 595
BstKTI	GATC	3 cut(s)	527, 772, 835
BstMAI	GTCTC	1 cut(s)	397
BstMBI	GATC	3 cut(s)	524, 769, 832
BstMWI	GCNNNNNNNGC	2 cut(s)	31, 488
BstNI	CCWGG	2 cut(s)	424, 774
BstSCI	CCNGG	2 cut(s)	422, 772
BstSFI	CTRYAG	1 cut(s)	78
BstV1I	GCAGC	1 cut(s)	86
BstX2I	RGATCY	1 cut(s)	769
BstYI	RGATCY	1 cut(s)	769
BtsCI	GGATG	2 cut(s)	55, 595
BtsIMutI	CAGTG	2 cut(s)	163, 402
BveI	ACCTGC	2 cut(s)	302, 589
Cac8I	GCNNGC	1 cut(s)	93
CciI	TCATGA	1 cut(s)	630
Cfr13I	GGNCC	1 cut(s)	578
CseI	GACGC	1 cut(s)	542
Csp6I	GTAC	1 cut(s)	140
CviAII	CATG	7 cut(s)	137, 212, 450, 631, 695, 716, 746
CviQI	GTAC	1 cut(s)	140
DdeI	CTNAG	4 cut(s)	183, 394, 483, 918
DpnI	GATC	3 cut(s)	526, 771, 834
DpnII	GATC	3 cut(s)	524, 769, 832
DriI	GACNNNNNGTC	1 cut(s)	178
Eam1105I	GACNNNNNGTC	1 cut(s)	178
Eco130I	CCWWGG	1 cut(s)	334
Eco47I	GGWCC	1 cut(s)	578
Eco57I	CTGAAG	1 cut(s)	399
EcoO109I	RGGNCCY	1 cut(s)	578
EcoRII	CCWGG	2 cut(s)	422, 772
EcoT14I	CCWWGG	1 cut(s)	334
ErhI	CCWWGG	1 cut(s)	334
FaeI	CATG	7 cut(s)	140, 215, 453, 634, 698, 719, 749
FaqI	GGGAC	2 cut(s)	591, 718
FatI	CATG	7 cut(s)	136, 211, 449, 630, 694, 715, 745
FauI	CCCGC	1 cut(s)	84
FblI	GTMKAC	1 cut(s)	105
Fnu4HI	GCNGC	1 cut(s)	75
FokI	GGATG	2 cut(s)	62, 602
Fsp4HI	GCNGC	1 cut(s)	75
FspBI	CTAG	2 cut(s)	114, 908
GluI	GCNGC	1 cut(s)	75
GsuI	CTGGAG	1 cut(s)	50
HgaI	GACGC	1 cut(s)	542
Hin1II	CATG	7 cut(s)	140, 215, 453, 634, 698, 719, 749
HindIII	AAGCTT	2 cut(s)	23, 536
HinfI	GANTC	4 cut(s)	53, 173, 719, 884
Hpy166II	GTNNAC	3 cut(s)	106, 689, 782
Hpy188I	TCNGA	3 cut(s)	58, 184, 522
Hpy188III	TCNNGA	5 cut(s)	29, 114, 631, 703, 800
Hpy8I	GTNNAC	3 cut(s)	106, 689, 782
HpyAV	CCTTC	3 cut(s)	374, 421, 664
HpyCH4III	ACNGT	2 cut(s)	459, 609
HpyCH4V	TGCA	5 cut(s)	121, 193, 299, 347, 453
HpyF10VI	GCNNNNNNNGC	2 cut(s)	31, 488
HpyF3I	CTNAG	4 cut(s)	183, 394, 483, 918
Hsp92II	CATG	7 cut(s)	140, 215, 453, 634, 698, 719, 749
Kzo9I	GATC	3 cut(s)	524, 769, 832
LmnI	GCTCC	2 cut(s)	31, 550
Lsp1109I	GCAGC	1 cut(s)	86
LweI	GCATC	1 cut(s)	882
MaeI	CTAG	2 cut(s)	114, 908
MaeIII	GTNAC	3 cut(s)	170, 289, 741
MalI	GATC	3 cut(s)	526, 771, 834
MboI	GATC	3 cut(s)	524, 769, 832
MboII	GAAGA	4 cut(s)	671, 679, 781, 815
MfeI	CAATTG	2 cut(s)	879, 959
MflI	RGATCY	1 cut(s)	769
MluCI	AATT	7 cut(s)	258, 350, 496, 753, 879, 959, 968
MlyI	GAGTC	3 cut(s)	62, 167, 893
MmeI	TCCRAC	1 cut(s)	24
MseI	TTAA	4 cut(s)	432, 794, 840, 848
MspA1I	CMGCKG	3 cut(s)	412, 683, 922
MspCI	CTTAAG	1 cut(s)	793
MspR9I	CCNGG	2 cut(s)	424, 774
MunI	CAATTG	2 cut(s)	879, 959
Mva1269I	GAATGC	3 cut(s)	123, 204, 349
MvaI	CCWGG	2 cut(s)	424, 774
MwoI	GCNNNNNNNGC	2 cut(s)	31, 488
NdeII	GATC	3 cut(s)	524, 769, 832
NlaIII	CATG	7 cut(s)	140, 215, 453, 634, 698, 719, 749
NlaIV	GGNNCC	2 cut(s)	579, 771
NmeAIII	GCCGAG	1 cut(s)	752
NmuCI	GTSAC	1 cut(s)	170
NspV	TTCGAA	1 cut(s)	952
PagI	TCATGA	1 cut(s)	630
PcsI	WCGNNNNNNNCGW	1 cut(s)	757
PctI	GAATGC	3 cut(s)	123, 204, 349
PfeI	GAWTC	1 cut(s)	719
PflMI	CCANNNNNTGG	1 cut(s)	609
PfoI	TCCNGGA	2 cut(s)	422, 772
PkrI	GCNGC	1 cut(s)	76
PleI	GAGTC	3 cut(s)	61, 167, 892
PpsI	GAGTC	3 cut(s)	61, 167, 892
PpuMI	RGGWCCY	1 cut(s)	578
Psp5II	RGGWCCY	1 cut(s)	578
Psp6I	CCWGG	2 cut(s)	422, 772
PspGI	CCWGG	2 cut(s)	422, 772
PspN4I	GGNNCC	2 cut(s)	579, 771
PspPI	GGNCC	1 cut(s)	578
PspPPI	RGGWCCY	1 cut(s)	578
PsuI	RGATCY	1 cut(s)	769
PvuII	CAGCTG	1 cut(s)	683
RsaI	GTAC	1 cut(s)	141
RsaNI	GTAC	1 cut(s)	140
SaqAI	TTAA	4 cut(s)	432, 794, 840, 848
SatI	GCNGC	1 cut(s)	75
Sau3AI	GATC	3 cut(s)	524, 769, 832
Sau96I	GGNCC	1 cut(s)	578
SchI	GAGTC	3 cut(s)	62, 167, 893
ScrFI	CCNGG	2 cut(s)	424, 774
SfaNI	GCATC	1 cut(s)	882
SfcI	CTRYAG	1 cut(s)	78
SfuI	TTCGAA	1 cut(s)	952
SinI	GGWCC	1 cut(s)	578
SmlI	CTYRAG	1 cut(s)	793
SmoI	CTYRAG	1 cut(s)	793
Sse9I	AATT	7 cut(s)	258, 350, 496, 753, 879, 959, 968
SsiI	CCGC	3 cut(s)	91, 410, 922
SspMI	CTAG	2 cut(s)	114, 908
StyD4I	CCNGG	2 cut(s)	422, 772
StyI	CCWWGG	1 cut(s)	334
TaaI	ACNGT	2 cut(s)	459, 609
TaqI	TCGA	3 cut(s)	316, 751, 952
TasI	AATT	7 cut(s)	258, 350, 496, 753, 879, 959, 968
TatI	WGTACW	1 cut(s)	139
TfiI	GAWTC	1 cut(s)	719
Tru1I	TTAA	4 cut(s)	432, 794, 840, 848
Tru9I	TTAA	4 cut(s)	432, 794, 840, 848
TscAI	CASTG	2 cut(s)	163, 402
TseFI	GTSAC	1 cut(s)	170
TseI	GCWGC	1 cut(s)	74
Tsp45I	GTSAC	1 cut(s)	170
TspDTI	ATGAA	9 cut(s)	17, 450, 480, 606, 647, 683, 732, 927, 990
TspRI	CASTG	2 cut(s)	163, 402
Van91I	CCANNNNNTGG	1 cut(s)	609
Vha464I	CTTAAG	1 cut(s)	793
VpaK11BI	GGWCC	1 cut(s)	578
XapI	RAATTY	3 cut(s)	350, 496, 968
XbaI	TCTAGA	1 cut(s)	113
XcmI	CCANNNNNNNNNTGG	1 cut(s)	143
XmiI	GTMKAC	1 cut(s)	105
XspI	CTAG	2 cut(s)	114, 908

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