Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0005400

Physical Location & Seq

Genomic Coordinates Reverse (-)

36644746 .. 36647051

Gene Structure 2306 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG167100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 726 bp

ATGCACAAAACAGGTCGCCATGTACTTGTTGGCACAACCAGTGTTGAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGGTTCTCAACGCAAAACCAGAGAATGTGGAGAGGGAAGCAGAAATTGTGGCACAAAGCAGTCGTTTAGGGGCAGTTACTATTGCAACCAATATGGCAGGTCGAGGAACAAACATAATCCTTGGTGGGAATGTAGAATTTATGGCGAGGTTGAAGCTGCGTGAGATGCTTATGCCAAGAGTTGTAAAACTAACTGAAGGAGGTTATGTCTCAGTGAAAAAACTTCCGCCGAAAAAATCTTGGAAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAATTAGCTGAGGAAGCTGTGAATTTAGCTGTTGAAACTTGGGGTCAGAGATCATTGACAGAGCTTGAAGCAGAGGAGCGTCTTTCTTATTCTTGCGAAAAGGGACCTGCTTTGGATGAAGTGATAGCCAAACTGCGGAGTGCTTTTTTAGAAATCATGAAAGAATATAAGGGCTACACAGAGGAAGAAAGGAAGAAGGTTGTGTCAGCTGGTGGACTTCATGTTGTCAGGACAGAACGCCATGAATCTCGCCGAGTTGATAATCAGGCAAATATTGGTTCAAAGTCTTCAAAAGAAAGCTGGGATCTTGATAAGCTCATCAAGAAACTTCAACAGTAA

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

241

Amino Acids

27.01

Weight (kDa)

8.91

Isoelectric Point (pI)

47.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	1 - 219	8e-44	SecA P-loop domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)	185, 502
AciI	CCGC	2 cut(s)	323, 523
AclWI	GGATC	1 cut(s)	699
AcsI	RAATTY	2 cut(s)	233, 409
AcuI	CTGAAG	1 cut(s)	312
AfaI	GTAC	1 cut(s)	24
AfiI	CCNNNNNNNGG	1 cut(s)	522
AgsI	TTSAA	6 cut(s)	250, 422, 455, 669, 678, 719
AhdI	GACNNNNNGTC	1 cut(s)	61
AluBI	AGCT	9 cut(s)	253, 355, 395, 404, 416, 451, 596, 687, 703
AluI	AGCT	9 cut(s)	253, 355, 395, 404, 416, 451, 596, 687, 703
Alw26I	GTCTC	1 cut(s)	310
AlwI	GGATC	1 cut(s)	699
ApeKI	GCWGC	1 cut(s)	253
ApoI	RAATTY	2 cut(s)	233, 409
AspS9I	GGNCC	1 cut(s)	491
AvaII	GGWCC	1 cut(s)	491
BbsI	GAAGAC	1 cut(s)	666
BbvCI	CCTCAGC	1 cut(s)	396
BbvI	GCAGC	1 cut(s)	240
BcoDI	GTCTC	1 cut(s)	310
BfuAI	ACCTGC	2 cut(s)	185, 502
BisI	GCNGC	1 cut(s)	254
BlsI	GCNGC	1 cut(s)	255
Bme18I	GGWCC	1 cut(s)	491
BmeRI	GACNNNNNGTC	1 cut(s)	61
BmgT120I	GGNCC	1 cut(s)	491
BmiI	GGNNCC	1 cut(s)	492
BmsI	GCATC	1 cut(s)	252
BpiI	GAAGAC	1 cut(s)	666
Bpu10I	CCTNAGC	1 cut(s)	396
BsaJI	CCNNGG	1 cut(s)	217
BsaXI	ACNNNNNCTCC	2 cut(s)	288, 318
Bsc4I	CCNNNNNNNGG	1 cut(s)	522
Bse1I	ACTGG	1 cut(s)	39
BseDI	CCNNGG	1 cut(s)	217
BseGI	GGATG	1 cut(s)	508
BseLI	CCNNNNNNNGG	1 cut(s)	522
BseMII	CTCAG	3 cut(s)	57, 321, 387
BseNI	ACTGG	1 cut(s)	39
BseRI	GAGGAG	1 cut(s)	476
BseXI	GCAGC	1 cut(s)	240
BseYI	CCCAGC	1 cut(s)	687
BslFI	GGGAC	1 cut(s)	504
BslI	CCNNNNNNNGG	1 cut(s)	522
BsmAI	GTCTC	1 cut(s)	310
BsmFI	GGGAC	1 cut(s)	504
BsmI	GAATGC	1 cut(s)	87
Bsp143I	GATC	2 cut(s)	437, 691
BspACI	CCGC	2 cut(s)	323, 523
BspCNI	CTCAG	3 cut(s)	58, 320, 388
BspHI	TCATGA	1 cut(s)	543
BspLI	GGNNCC	1 cut(s)	492
BspMI	ACCTGC	2 cut(s)	185, 502
BspPI	GGATC	1 cut(s)	699
BsrI	ACTGG	1 cut(s)	39
BssECI	CCNNGG	1 cut(s)	217
BssMI	GATC	2 cut(s)	437, 691
BssT1I	CCWWGG	1 cut(s)	217
Bst4CI	ACNGT	2 cut(s)	372, 723
BstDEI	CTNAG	3 cut(s)	66, 307, 396
BstF5I	GGATG	1 cut(s)	508
BstKTI	GATC	2 cut(s)	440, 694
BstMAI	GTCTC	1 cut(s)	310
BstMBI	GATC	2 cut(s)	437, 691
BstMWI	GCNNNNNNNGC	2 cut(s)	262, 401
BstV1I	GCAGC	1 cut(s)	240
BstV2I	GAAGAC	1 cut(s)	666
BstX2I	RGATCY	1 cut(s)	691
BstYI	RGATCY	1 cut(s)	691
BtsCI	GGATG	1 cut(s)	508
BtsIMutI	CAGTG	2 cut(s)	46, 315
BveI	ACCTGC	2 cut(s)	185, 502
CciI	TCATGA	1 cut(s)	543
Cfr13I	GGNCC	1 cut(s)	491
CseI	GACGC	1 cut(s)	455
Csp6I	GTAC	1 cut(s)	23
CviAII	CATG	6 cut(s)	20, 95, 363, 544, 608, 629
CviQI	GTAC	1 cut(s)	23
DdeI	CTNAG	3 cut(s)	66, 307, 396
DpnI	GATC	2 cut(s)	439, 693
DpnII	GATC	2 cut(s)	437, 691
DriI	GACNNNNNGTC	1 cut(s)	61
Eam1105I	GACNNNNNGTC	1 cut(s)	61
EciI	GGCGGA	1 cut(s)	312
Eco130I	CCWWGG	1 cut(s)	217
Eco47I	GGWCC	1 cut(s)	491
Eco57I	CTGAAG	1 cut(s)	312
EcoO109I	RGGNCCY	1 cut(s)	491
EcoT14I	CCWWGG	1 cut(s)	217
ErhI	CCWWGG	1 cut(s)	217
FaeI	CATG	6 cut(s)	23, 98, 366, 547, 611, 632
FaqI	GGGAC	1 cut(s)	504
FatI	CATG	6 cut(s)	19, 94, 362, 543, 607, 628
Fnu4HI	GCNGC	1 cut(s)	254
FokI	GGATG	1 cut(s)	515
Fsp4HI	GCNGC	1 cut(s)	254
GluI	GCNGC	1 cut(s)	254
GsaI	CCCAGC	1 cut(s)	691
HgaI	GACGC	1 cut(s)	455
Hin1II	CATG	6 cut(s)	23, 98, 366, 547, 611, 632
HinfI	GANTC	2 cut(s)	56, 632
Hpy166II	GTNNAC	1 cut(s)	602
Hpy188I	TCNGA	2 cut(s)	67, 435
Hpy188III	TCNNGA	4 cut(s)	544, 616, 695, 709
Hpy8I	GTNNAC	1 cut(s)	602
HpyAV	CCTTC	3 cut(s)	287, 334, 577
HpyCH4III	ACNGT	2 cut(s)	372, 723
HpyCH4V	TGCA	4 cut(s)	4, 76, 182, 366
HpyF10VI	GCNNNNNNNGC	2 cut(s)	262, 401
HpyF3I	CTNAG	3 cut(s)	66, 307, 396
Hsp92II	CATG	6 cut(s)	23, 98, 366, 547, 611, 632
Kzo9I	GATC	2 cut(s)	437, 691
LmnI	GCTCC	1 cut(s)	463
LpnPI	CCDG	8 cut(s)	52, 129, 180, 507, 582, 601, 638, 673
Lsp1109I	GCAGC	1 cut(s)	240
LweI	GCATC	1 cut(s)	252
MaeIII	GTNAC	2 cut(s)	53, 172
MalI	GATC	2 cut(s)	439, 693
MboI	GATC	2 cut(s)	437, 691
MboII	GAAGA	3 cut(s)	584, 592, 666
MflI	RGATCY	1 cut(s)	691
MluCI	AATT	4 cut(s)	141, 233, 389, 409
MlyI	GAGTC	1 cut(s)	50
MnlI	CCTC	8 cut(s)	91, 123, 194, 237, 290, 391, 454, 562
MseI	TTAA	1 cut(s)	345
MspA1I	CMGCKG	1 cut(s)	596
Mva1269I	GAATGC	1 cut(s)	87
MwoI	GCNNNNNNNGC	2 cut(s)	262, 401
NdeII	GATC	2 cut(s)	437, 691
NlaIII	CATG	6 cut(s)	23, 98, 366, 547, 611, 632
NlaIV	GGNNCC	1 cut(s)	492
NmeAIII	GCCGAG	1 cut(s)	665
NmuCI	GTSAC	1 cut(s)	53
PagI	TCATGA	1 cut(s)	543
PctI	GAATGC	1 cut(s)	87
PfeI	GAWTC	1 cut(s)	632
PkrI	GCNGC	1 cut(s)	255
PleI	GAGTC	1 cut(s)	50
PpsI	GAGTC	1 cut(s)	50
PpuMI	RGGWCCY	1 cut(s)	491
Psp5II	RGGWCCY	1 cut(s)	491
PspFI	CCCAGC	1 cut(s)	687
PspN4I	GGNNCC	1 cut(s)	492
PspPI	GGNCC	1 cut(s)	491
PspPPI	RGGWCCY	1 cut(s)	491
PsuI	RGATCY	1 cut(s)	691
PvuII	CAGCTG	1 cut(s)	596
RsaI	GTAC	1 cut(s)	24
RsaNI	GTAC	1 cut(s)	23
SaqAI	TTAA	1 cut(s)	345
SatI	GCNGC	1 cut(s)	254
Sau3AI	GATC	2 cut(s)	437, 691
Sau96I	GGNCC	1 cut(s)	491
SchI	GAGTC	1 cut(s)	50
SfaNI	GCATC	1 cut(s)	252
SinI	GGWCC	1 cut(s)	491
Sse9I	AATT	4 cut(s)	141, 233, 389, 409
SsiI	CCGC	2 cut(s)	323, 523
SspI	AATATT	1 cut(s)	661
StyI	CCWWGG	1 cut(s)	217
TaaI	ACNGT	2 cut(s)	372, 723
TaqI	TCGA	1 cut(s)	199
TasI	AATT	4 cut(s)	141, 233, 389, 409
TatI	WGTACW	1 cut(s)	22
TfiI	GAWTC	1 cut(s)	632
Tru1I	TTAA	1 cut(s)	345
Tru9I	TTAA	1 cut(s)	345
TscAI	CASTG	2 cut(s)	46, 315
TseFI	GTSAC	1 cut(s)	53
TseI	GCWGC	1 cut(s)	253
Tsp45I	GTSAC	1 cut(s)	53
TspDTI	ATGAA	6 cut(s)	363, 393, 519, 560, 596, 645
TspRI	CASTG	2 cut(s)	46, 315
VpaK11BI	GGWCC	1 cut(s)	491
XapI	RAATTY	2 cut(s)	233, 409
XcmI	CCANNNNNNNNNTGG	1 cut(s)	26

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