Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0000831

Physical Location & Seq

Genomic Coordinates Reverse (-)

39986312 .. 39996817

Gene Structure 10506 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000013747

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1167 bp

ATGGAGCTTGGGTGTCCTGAGCAATTGCTTGGGTGTGAAGAGCAGTCTGCTCTTCATCGCGAATTGCCGGAGTTCGTCATGTCGTCTACGATCGACGCTGCTCGGTCAGCTCCAAAAACCCTCACCCACCACCACCGCTCCGCCGCCACCCCAACCCGAATCCAAACCAGGCTCCAAACCCGCCACTGGCGAACTCTTCGTGGACCTGACGGTGGTGATCTCTTGGTCAGATGTCTCTCTCTCGATCATCGGCTGCTAGGGGGTGGATCCGTGGGTTGGCTTCCCCTTTCGTCTAGTCCCACTGAGGTTGGATCCTTCAGCTGCAAAATGTCGTCCGACTCGTCACCACCTTTAACTTACTTCATTACTATATCCTATCAACCCGTCCAACCTGTCCAGATCGTTGCTGGCCCCCATATCTCTGATTCCGATTTCAGGAGTGCTATCGATACTTCCTTGTTTAAGCAGTGGCTGAAGAACACCCAGACTGAAAATGGGATTTTACACGGTGGTTCCATGTCTCTTACACGAGTTCTAATTCAGCACATTGGTTTTCTGAAATTCCAAGCAGATGTATTCGATAAACAAATAGGGAAAAAGGTAAATCCATCAATGTCAATCAGCTCAGCTGTAGCTATGCTTATCCTTTTGAAGTCAGAGGAGATGGCGTATGCTGTTCTTACTGAGCAGGGTTCACAGTCGCATGAGTTCTATAGTTCCGTCCATTTCTATTATGGTCTTCAACCTGCTACTGCTAAAACCTGCTCTATGTTGCGTATTGAGGATGGAGTGAGGGGGTGGAGTGATGGACTTCACCAAGCAGTTGAAGCAAAAGAAGTTCTGTCGATTCAAAACGAAACTGTAACTCTGGCACCTATTAGCTACCAAAACTTCTTTCTCCAGGATGATTCTGATGTAGTTTTCAAGGCAACTAAAGGTAAATGGCGGGCAGTTGTAGTTGAGATTTCTAGAATGCACAAAACAGGCCGCCCTGTACTTGTTGGCACAACTAGTGTTAAGCAGAGTGACTCATTGTCTGAGCAGTTGCAAGAAGTTGGCATTCCCCATGAGGTTAATGAAAAGCTATTTCCATGCAAACTGTCCAATGAAAAGACCAAGTTAGCTGAGGAAGCTGTGAATTTAGCTGCTGAAACTTGGGGTCTCTGA

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

389

Amino Acids

42.84

Weight (kDa)

6.4

Isoelectric Point (pI)

59.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
P-loop_SecA	PF21090	301 - 358	6e-16	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000831)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G11980
fragaria_vesca	FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080 FvH4_5g01080
malus_domestica	MD04G1073000.v1.1
prunus_persica	Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1 Prupe.5G084800_v2.0.a1
pyrus_communis	pycom04g06610
rosa_chinensis	RchiOBHm_Chr0c37g0502981 RchiOBHm_Chr1g0341841 RchiOBHm_Chr2g0125491 RchiOBHm_Chr4g0403961 RchiOBHm_Chr4g0425481 RchiOBHm_Chr6g0265101 RchiOBHm_Chr6g0265181 RchiOBHm_Chr7g0200241
rosa_laevigata	RLG00000001516 RLG00000002981 RLG00000003741 RLG00000013747 RLG00000016807
rosa_multiflora	Rmu_sc0003776.1_g000038 Rmu_sc0006398.1_g000015 Rmu_sc0019284.1_g000002
rosa_roxburghii	Rroxscaffold_3G00233480 Rroxscaffold_3G00233540 Rroxscaffold_3G00256200 Rroxscaffold_5G00387730 Rroxscaffold_6G00396100
rosa_rugosa	Rorug01G0208200 Rorug01G0280900 Rorug01G0418600 Rorug02G0279000 Rorug04G0081200 Rorug05G0323800 Rorug05G0574400 Rorug07G0058700
rosa_samantha	Rh1AG260600 Rh1BG135400 Rh1BG136300 Rh1CG070000 Rh1DG074600 Rh2AG365800 Rh2AG365900 Rh2BG539700 Rh3BG097600 Rh4AG421000 Rh4BG432900 Rh5AG197000 Rh5AG320000 Rh5BG196900 Rh5CG106200 Rh6AG247800 Rh6BG133700 Rh6CG132200 Rh6CG525100 Rh6DG119400 Rh7AG144000 Rh7AG184200 Rh7AG200500 Rh7BG186900 Rh7CG194600 Rh7DG188300
rosa_wichuraiana	Rw5G029930 Rw7G016120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	754, 770
AccB1I	GGYRCC	1 cut(s)	871
AccBSI	CCGCTC	1 cut(s)	138
AccI	GTMKAC	1 cut(s)	86
AccII	CGCG	1 cut(s)	60
AciI	CCGC	6 cut(s)	136, 141, 144, 181, 946, 988
AclWI	GGATC	4 cut(s)	261, 274, 306, 319
AcsI	RAATTY	2 cut(s)	560, 1138
AcuI	CTGAAG	2 cut(s)	301, 494
AfaI	GTAC	1 cut(s)	996
AfiI	CCNNNNNNNGG	4 cut(s)	186, 212, 276, 435
AgsI	TTSAA	5 cut(s)	652, 743, 827, 851, 925
AhdI	GACNNNNNGTC	1 cut(s)	1033
AhlI	ACTAGT	1 cut(s)	1010
AjnI	CCWGG	2 cut(s)	167, 900
AjuI	GAANNNNNNNTTGG	2 cut(s)	879, 911
Alw26I	GTCTC	2 cut(s)	239, 525
AlwI	GGATC	4 cut(s)	261, 274, 306, 319
AlwNI	CAGNNNCTG	1 cut(s)	472
AoxI	GGCC	2 cut(s)	409, 985
ApeKI	GCWGC	4 cut(s)	98, 253, 321, 1145
ApoI	RAATTY	2 cut(s)	560, 1138
AspS9I	GGNCC	2 cut(s)	203, 410
AsuHPI	GGTGA	4 cut(s)	115, 227, 336, 806
AvaII	GGWCC	1 cut(s)	203
BamHI	GGATCC	2 cut(s)	266, 311
BanI	GGYRCC	1 cut(s)	871
BauI	CACGAG	1 cut(s)	528
BbsI	GAAGAC	1 cut(s)	731
BbvCI	CCTCAGC	1 cut(s)	1125
BbvI	GCAGC	4 cut(s)	85, 240, 308, 1132
BccI	CCATC	4 cut(s)	616, 658, 779, 800
BciT130I	CCWGG	2 cut(s)	169, 902
BcoDI	GTCTC	2 cut(s)	239, 525
BcuI	ACTAGT	1 cut(s)	1010
BfaI	CTAG	4 cut(s)	257, 294, 969, 1011
BfmI	CTRYAG	2 cut(s)	630, 712
BfuAI	ACCTGC	2 cut(s)	754, 770
BisI	GCNGC	6 cut(s)	99, 144, 254, 322, 988, 1146
BlpI	GCTNAGC	1 cut(s)	625
BlsI	GCNGC	6 cut(s)	100, 145, 255, 323, 989, 1147
Bme1390I	CCNGG	2 cut(s)	169, 902
Bme18I	GGWCC	1 cut(s)	203
BmeRI	GACNNNNNGTC	1 cut(s)	1033
BmgT120I	GGNCC	2 cut(s)	203, 410
BmiI	GGNNCC	6 cut(s)	173, 268, 313, 412, 514, 873
BmrFI	CCNGG	2 cut(s)	169, 902
BpiI	GAAGAC	1 cut(s)	731
BpmI	CTGGAG	1 cut(s)	884
Bpu10I	CCTNAGC	2 cut(s)	18, 1125
Bpu1102I	GCTNAGC	1 cut(s)	625
Bsa29I	ATCGAT	1 cut(s)	447
BsaJI	CCNNGG	1 cut(s)	270
BsaXI	ACNNNNNCTCC	5 cut(s)	26, 122, 152, 653, 683
Bsc4I	CCNNNNNNNGG	4 cut(s)	186, 212, 276, 435
Bse1I	ACTGG	1 cut(s)	191
BseBI	CCWGG	2 cut(s)	169, 902
BseCI	ATCGAT	1 cut(s)	447
BseDI	CCNNGG	1 cut(s)	270
BseGI	GGATG	2 cut(s)	790, 910
BseLI	CCNNNNNNNGG	4 cut(s)	186, 212, 276, 435
BseMII	CTCAG	6 cut(s)	9, 294, 639, 675, 1029, 1116
BseNI	ACTGG	1 cut(s)	191
BseRI	GAGGAG	1 cut(s)	674
BseXI	GCAGC	4 cut(s)	85, 240, 308, 1132
Bsh1236I	CGCG	1 cut(s)	60
Bsh1285I	CGRYCG	1 cut(s)	93
BshFI	GGCC	2 cut(s)	411, 987
BshNI	GGYRCC	1 cut(s)	871
BshVI	ATCGAT	1 cut(s)	447
BsiEI	CGRYCG	1 cut(s)	93
BsiSI	CCGG	1 cut(s)	68
BslFI	GGGAC	1 cut(s)	282
BslI	CCNNNNNNNGG	4 cut(s)	186, 212, 276, 435
BsmAI	GTCTC	2 cut(s)	239, 525
BsmFI	GGGAC	1 cut(s)	282
BsmI	GAATGC	2 cut(s)	978, 1059
BsnI	GGCC	2 cut(s)	411, 987
Bsp143I	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
Bsp1720I	GCTNAGC	1 cut(s)	625
Bsp68I	TCGCGA	1 cut(s)	60
BspACI	CCGC	6 cut(s)	136, 141, 144, 181, 946, 988
BspANI	GGCC	2 cut(s)	411, 987
BspCNI	CTCAG	6 cut(s)	10, 295, 638, 676, 1030, 1117
BspDI	ATCGAT	1 cut(s)	447
BspFNI	CGCG	1 cut(s)	60
BspLI	GGNNCC	6 cut(s)	173, 268, 313, 412, 514, 873
BspMI	ACCTGC	2 cut(s)	754, 770
BspPI	GGATC	4 cut(s)	261, 274, 306, 319
BspQI	GCTCTTC	2 cut(s)	33, 57
BspT107I	GGYRCC	1 cut(s)	871
BsrBI	CCGCTC	1 cut(s)	138
BsrI	ACTGG	1 cut(s)	191
BssECI	CCNNGG	1 cut(s)	270
BssMI	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
BssSI	CACGAG	1 cut(s)	528
Bst2BI	CACGAG	1 cut(s)	528
Bst2UI	CCWGG	2 cut(s)	169, 902
Bst4CI	ACNGT	5 cut(s)	212, 509, 699, 862, 1101
Bst6I	CTCTTC	3 cut(s)	33, 57, 201
BstC8I	GCNNGC	2 cut(s)	409, 948
BstDEI	CTNAG	6 cut(s)	18, 303, 625, 684, 1038, 1125
BstDSI	CCRYGG	1 cut(s)	270
BstF5I	GGATG	2 cut(s)	790, 910
BstFNI	CGCG	1 cut(s)	60
BstKTI	GATC	6 cut(s)	93, 220, 247, 269, 314, 402
BstMAI	GTCTC	2 cut(s)	239, 525
BstMBI	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
BstMCI	CGRYCG	1 cut(s)	93
BstMWI	GCNNNNNNNGC	3 cut(s)	107, 827, 1130
BstNI	CCWGG	2 cut(s)	169, 902
BstSCI	CCNGG	2 cut(s)	167, 900
BstSFI	CTRYAG	2 cut(s)	630, 712
BstUI	CGCG	1 cut(s)	60
BstV1I	GCAGC	4 cut(s)	85, 240, 308, 1132
BstV2I	GAAGAC	1 cut(s)	731
BstX2I	RGATCY	2 cut(s)	266, 311
BstYI	RGATCY	2 cut(s)	266, 311
Bsu15I	ATCGAT	1 cut(s)	447
BsuRI	GGCC	2 cut(s)	411, 987
BsuTUI	ATCGAT	1 cut(s)	447
BtgI	CCRYGG	1 cut(s)	270
BtgZI	GCGATG	1 cut(s)	41
BtsCI	GGATG	2 cut(s)	790, 910
BtsI	GCAGTG	1 cut(s)	473
BtsIMutI	CAGTG	3 cut(s)	184, 300, 473
BtuMI	TCGCGA	1 cut(s)	60
BveI	ACCTGC	2 cut(s)	754, 770
Cac8I	GCNNGC	2 cut(s)	409, 948
CaiI	CAGNNNCTG	1 cut(s)	472
Cfr13I	GGNCC	2 cut(s)	203, 410
ClaI	ATCGAT	1 cut(s)	447
CseI	GACGC	1 cut(s)	104
Csp6I	GTAC	1 cut(s)	995
CspCI	CAANNNNNGTGG	2 cut(s)	289, 324
CviAII	CATG	5 cut(s)	79, 517, 704, 1067, 1092
CviQI	GTAC	1 cut(s)	995
DdeI	CTNAG	6 cut(s)	18, 303, 625, 684, 1038, 1125
DpnI	GATC	6 cut(s)	92, 219, 246, 268, 313, 401
DpnII	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
DriI	GACNNNNNGTC	1 cut(s)	1033
Eam1104I	CTCTTC	3 cut(s)	33, 57, 201
Eam1105I	GACNNNNNGTC	1 cut(s)	1033
EarI	CTCTTC	3 cut(s)	33, 57, 201
EciI	GGCGGA	1 cut(s)	130
Eco47I	GGWCC	1 cut(s)	203
Eco57I	CTGAAG	2 cut(s)	301, 494
EcoRII	CCWGG	2 cut(s)	167, 900
FaeI	CATG	5 cut(s)	82, 520, 707, 1070, 1095
FaqI	GGGAC	1 cut(s)	282
FatI	CATG	5 cut(s)	78, 516, 703, 1066, 1091
FauI	CCCGC	2 cut(s)	188, 939
FblI	GTMKAC	1 cut(s)	86
Fnu4HI	GCNGC	6 cut(s)	99, 144, 254, 322, 988, 1146
FokI	GGATG	2 cut(s)	797, 917
Fsp4HI	GCNGC	6 cut(s)	99, 144, 254, 322, 988, 1146
FspBI	CTAG	4 cut(s)	257, 294, 969, 1011
GluI	GCNGC	6 cut(s)	99, 144, 254, 322, 988, 1146
GsuI	CTGGAG	1 cut(s)	884
HaeIII	GGCC	2 cut(s)	411, 987
HapII	CCGG	1 cut(s)	68
HgaI	GACGC	1 cut(s)	104
Hin1II	CATG	5 cut(s)	82, 520, 707, 1070, 1095
HinfI	GANTC	6 cut(s)	159, 338, 425, 847, 908, 1028
HpaII	CCGG	1 cut(s)	68
HphI	GGTGA	4 cut(s)	115, 227, 336, 806
Hpy166II	GTNNAC	3 cut(s)	87, 203, 695
Hpy188I	TCNGA	9 cut(s)	230, 337, 424, 430, 558, 658, 913, 1039, 1166
Hpy188III	TCNNGA	6 cut(s)	17, 59, 242, 397, 436, 969
Hpy8I	GTNNAC	3 cut(s)	87, 203, 695
Hpy99I	CGWCG	1 cut(s)	98
HpyAV	CCTTC	1 cut(s)	325
HpyCH4III	ACNGT	5 cut(s)	212, 509, 699, 862, 1101
HpyCH4V	TGCA	4 cut(s)	324, 976, 1048, 1095
HpyF10VI	GCNNNNNNNGC	3 cut(s)	107, 827, 1130
HpyF3I	CTNAG	6 cut(s)	18, 303, 625, 684, 1038, 1125
Hsp92II	CATG	5 cut(s)	82, 520, 707, 1070, 1095
Kzo9I	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
LguI	GCTCTTC	2 cut(s)	33, 57
LmnI	GCTCC	4 cut(s)	4, 115, 143, 177
Lsp1109I	GCAGC	4 cut(s)	85, 240, 308, 1132
MaeI	CTAG	4 cut(s)	257, 294, 969, 1011
MaeIII	GTNAC	3 cut(s)	342, 862, 1025
MalI	GATC	6 cut(s)	92, 219, 246, 268, 313, 401
MbiI	CCGCTC	1 cut(s)	138
MboI	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
MboII	GAAGA	5 cut(s)	44, 50, 188, 487, 731
MfeI	CAATTG	1 cut(s)	23
MflI	RGATCY	2 cut(s)	266, 311
MluCI	AATT	5 cut(s)	23, 62, 537, 560, 1138
MlyI	GAGTC	2 cut(s)	332, 1022
MmeI	TCCRAC	3 cut(s)	289, 360, 412
MnlI	CCTC	7 cut(s)	131, 298, 652, 775, 786, 1063, 1120
MseI	TTAA	4 cut(s)	353, 462, 1017, 1074
MspA1I	CMGCKG	2 cut(s)	321, 629
MspI	CCGG	1 cut(s)	68
MspR9I	CCNGG	2 cut(s)	169, 902
MunI	CAATTG	1 cut(s)	23
Mva1269I	GAATGC	2 cut(s)	978, 1059
MvaI	CCWGG	2 cut(s)	169, 902
MvnI	CGCG	1 cut(s)	60
MwoI	GCNNNNNNNGC	3 cut(s)	107, 827, 1130
NdeII	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
NlaIII	CATG	5 cut(s)	82, 520, 707, 1070, 1095
NlaIV	GGNNCC	6 cut(s)	173, 268, 313, 412, 514, 873
NmuCI	GTSAC	2 cut(s)	342, 1025
NruI	TCGCGA	1 cut(s)	60
PciSI	GCTCTTC	2 cut(s)	33, 57
PcsI	WCGNNNNNNNCGW	1 cut(s)	338
PctI	GAATGC	2 cut(s)	978, 1059
PfeI	GAWTC	4 cut(s)	159, 425, 847, 908
PfoI	TCCNGGA	1 cut(s)	900
PkrI	GCNGC	6 cut(s)	100, 145, 255, 323, 989, 1147
Ple19I	CGATCG	1 cut(s)	93
PleI	GAGTC	2 cut(s)	332, 1022
PpsI	GAGTC	2 cut(s)	332, 1022
Psp6I	CCWGG	2 cut(s)	167, 900
PspGI	CCWGG	2 cut(s)	167, 900
PspN4I	GGNNCC	6 cut(s)	173, 268, 313, 412, 514, 873
PspPI	GGNCC	2 cut(s)	203, 410
PstNI	CAGNNNCTG	1 cut(s)	472
PsuI	RGATCY	2 cut(s)	266, 311
PvuI	CGATCG	1 cut(s)	93
PvuII	CAGCTG	2 cut(s)	321, 629
RruI	TCGCGA	1 cut(s)	60
RsaI	GTAC	1 cut(s)	996
RsaNI	GTAC	1 cut(s)	995
SapI	GCTCTTC	2 cut(s)	33, 57
SaqAI	TTAA	4 cut(s)	353, 462, 1017, 1074
SatI	GCNGC	6 cut(s)	99, 144, 254, 322, 988, 1146
Sau3AI	GATC	6 cut(s)	90, 217, 244, 266, 311, 399
Sau96I	GGNCC	2 cut(s)	203, 410
SchI	GAGTC	2 cut(s)	332, 1022
ScrFI	CCNGG	2 cut(s)	169, 902
SfcI	CTRYAG	2 cut(s)	630, 712
SinI	GGWCC	1 cut(s)	203
SpeI	ACTAGT	1 cut(s)	1010
Sse9I	AATT	5 cut(s)	23, 62, 537, 560, 1138
SsiI	CCGC	6 cut(s)	136, 141, 144, 181, 946, 988
SspMI	CTAG	4 cut(s)	257, 294, 969, 1011
StyD4I	CCNGG	2 cut(s)	167, 900
TaaI	ACNGT	5 cut(s)	212, 509, 699, 862, 1101
TaqI	TCGA	5 cut(s)	93, 243, 447, 579, 845
TaqII	GACCGA	1 cut(s)	93
TasI	AATT	5 cut(s)	23, 62, 537, 560, 1138
TatI	WGTACW	1 cut(s)	994
TauI	GCSGC	2 cut(s)	146, 990
TfiI	GAWTC	4 cut(s)	159, 425, 847, 908
Tru1I	TTAA	4 cut(s)	353, 462, 1017, 1074
Tru9I	TTAA	4 cut(s)	353, 462, 1017, 1074
TscAI	CASTG	3 cut(s)	191, 307, 473
TseFI	GTSAC	2 cut(s)	342, 1025
TseI	GCWGC	4 cut(s)	98, 253, 321, 1145
Tsp45I	GTSAC	2 cut(s)	342, 1025
TspDTI	ATGAA	4 cut(s)	44, 352, 1092, 1122
TspGWI	ACGGA	2 cut(s)	259, 709
TspRI	CASTG	3 cut(s)	191, 307, 473
VpaK11BI	GGWCC	1 cut(s)	203
XapI	RAATTY	2 cut(s)	560, 1138
XbaI	TCTAGA	1 cut(s)	968
XcmI	CCANNNNNNNNNTGG	3 cut(s)	404, 491, 731
XmiI	GTMKAC	1 cut(s)	86
XspI	CTAG	4 cut(s)	257, 294, 969, 1011

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