Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0016900

Physical Location & Seq

Genomic Coordinates Reverse (-)

11709926 .. 11712722

Gene Structure 2797 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001193

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1053 bp

ATGAAAAGAGAGAAGGAGACATATGAGAAAGCAAGGATGCTGAAGGAGTACATAGAAAATATCAGGGCTGCATACACCAAGGATTTTACAAGTGAAGATGGTGAAAAGAGGCAGATGGCAGTTGCTACCTATCTTGTCGATAAACTTTGTCTGAGGGCTGGAAATGATACGGATGATGATGAAATTGATACTGTCGAGTGCTGCAAATTAAAAGTAGAGAACGTCAAAACAATTCCCCCTAGCTCGTTGGAGTTCAACTTCCTCGTTAAAGATTCAATAAGATGTGAAAATACTGTTGATGTTGAGCTTCCTGTTTACAAGGCAATCGAAGAGTTCCTGGCTGGAAAGAATGGTAGTGAAGGTCTATTTGACAAGTTGGAGAATACCAGTAAATTGAATGCGCATCTAGAGGGACTGATGCCTGGCCTTACAGGAAAAGTATTCCGTACATACAATGCATGCATTACATTGGATGAAATATTGAACAAAGAAACTCCCTCTGGAGCTGTTTCAGAGAAAGCAGGTGTTTATAGACAGGCAACCAGGGAGGTTGCCATCATCTGTAATTTTCAGCGTACTGTCGCAAGGCCTGGTGGTGTACGGATGTACTGGTTAAAACAGAACATGAGTGAGTTGCAGGGCACATTGACGGAGCTGAAAACAGATTTGGATAGGGCGGTAATGGGATTACCCCCACTGAGAAATTCTAATGGAAAACCAAATAGAACCCTGACAGATATGGACAGGGCAGTAATGGGATTACCCCCACTGAGAAATTCTAATGGAAAACGAAAGAGAACCCTGACCCCAGAAGAGTTAGAGAGGACGATAGCTGAAACAATTCAGATGATTGAAAAATTGGAACAGGATATGAGAACCCAAGAGAACCAGAAATACACGTCAGTTGGAATGCCCAAAATCAGGTATCTTGACCCTAGGATCGCTGTTGCATGGTGTAAGCGAAATGAAGTTCCTATTAACATGATATACACCGAGTATTATATGCCAATGTTTGAGTGGGCAATGGATGTGGATATCGACTTCAGATTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Topo_C_assoc Topoisom_I Topoisom_I_N

Protein Analysis

351

Amino Acids

40.21

Weight (kDa)

5.68

Isoelectric Point (pI)

37.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I	PF01028	3 - 222	3.5e-68	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	283 - 350	1.6e-20	C-terminal topoisomerase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

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Tree File

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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: OG0016900)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g41220
rosa_laevigata	RLG00000001192 RLG00000001193 RLG00000001200 RLG00000001202 RLG00000001203
rosa_multiflora	Rmu_sc0000768.1_g000025
rosa_roxburghii	Rroxscaffold_3G00226480 Rroxscaffold_3G00226490 Rroxscaffold_3G00226550
rosa_rugosa	Rorug07G0286300
rosa_samantha	Rh7AG441000 Rh7BG413800 Rh7CG462700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	512
Acc16I	TGCGCA	1 cut(s)	402
Acc36I	ACCTGC	1 cut(s)	512
AciI	CCGC	1 cut(s)	677
AclWI	GGATC	1 cut(s)	947
AcsI	RAATTY	2 cut(s)	703, 775
AcuI	CTGAAG	2 cut(s)	62, 1027
AfaI	GTAC	5 cut(s)	50, 448, 577, 600, 608
AfiI	CCNNNNNNNGG	1 cut(s)	921
AflIII	ACRYGT	1 cut(s)	897
AgsI	TTSAA	5 cut(s)	256, 276, 397, 484, 854
AjiI	CACGTC	1 cut(s)	900
AjnI	CCWGG	4 cut(s)	336, 421, 542, 589
AjuI	GAANNNNNNNTTGG	2 cut(s)	650, 682
AluBI	AGCT	5 cut(s)	243, 307, 506, 655, 833
AluI	AGCT	5 cut(s)	243, 307, 506, 655, 833
Alw26I	GTCTC	1 cut(s)	11
AlwI	GGATC	1 cut(s)	947
AlwNI	CAGNNNCTG	1 cut(s)	1050
AoxI	GGCC	2 cut(s)	424, 587
ApeKI	GCWGC	2 cut(s)	68, 201
ApoI	RAATTY	2 cut(s)	703, 775
Asp700I	GAANNNNTTC	1 cut(s)	840
AspA2I	CCTAGG	1 cut(s)	935
AspLEI	GCGC	1 cut(s)	403
AsuHPI	GGTGA	1 cut(s)	113
AvrII	CCTAGG	1 cut(s)	935
BaeGI	GKGCMC	1 cut(s)	644
BbvI	GCAGC	2 cut(s)	55, 188
BccI	CCATC	3 cut(s)	92, 109, 563
BciT130I	CCWGG	4 cut(s)	338, 423, 544, 591
BcoDI	GTCTC	1 cut(s)	11
BfaI	CTAG	3 cut(s)	240, 407, 936
BfuAI	ACCTGC	1 cut(s)	512
BisI	GCNGC	2 cut(s)	69, 202
BlnI	CCTAGG	1 cut(s)	935
BlsI	GCNGC	2 cut(s)	70, 203
Bme1390I	CCNGG	4 cut(s)	338, 423, 544, 591
BmgBI	CACGTC	1 cut(s)	900
BmrFI	CCNGG	4 cut(s)	338, 423, 544, 591
BmsI	GCATC	3 cut(s)	27, 408, 412
BpmI	CTGGAG	1 cut(s)	522
BsaJI	CCNNGG	3 cut(s)	78, 543, 935
Bsc4I	CCNNNNNNNGG	1 cut(s)	921
Bse1I	ACTGG	2 cut(s)	387, 614
Bse3DI	GCAATG	1 cut(s)	1029
BseBI	CCWGG	4 cut(s)	338, 423, 544, 591
BseDI	CCNNGG	3 cut(s)	78, 543, 935
BseGI	GGATG	5 cut(s)	42, 178, 478, 609, 1033
BseLI	CCNNNNNNNGG	1 cut(s)	921
BseMI	GCAATG	1 cut(s)	1029
BseMII	CTCAG	3 cut(s)	143, 689, 761
BseNI	ACTGG	2 cut(s)	387, 614
BseSI	GKGCMC	1 cut(s)	644
BseXI	GCAGC	2 cut(s)	55, 188
BshFI	GGCC	2 cut(s)	426, 589
BslFI	GGGAC	1 cut(s)	426
BslI	CCNNNNNNNGG	1 cut(s)	921
BsmAI	GTCTC	1 cut(s)	11
BsmFI	GGGAC	1 cut(s)	426
BsmI	GAATGC	2 cut(s)	403, 915
BsnI	GGCC	2 cut(s)	426, 589
Bsp1286I	GDGCHC	1 cut(s)	644
Bsp143I	GATC	1 cut(s)	939
BspACI	CCGC	1 cut(s)	677
BspANI	GGCC	2 cut(s)	426, 589
BspCNI	CTCAG	3 cut(s)	144, 690, 762
BspMI	ACCTGC	1 cut(s)	512
BspPI	GGATC	1 cut(s)	947
BsrDI	GCAATG	1 cut(s)	1029
BsrI	ACTGG	2 cut(s)	387, 614
BssECI	CCNNGG	3 cut(s)	78, 543, 935
BssMI	GATC	1 cut(s)	939
BssT1I	CCWWGG	2 cut(s)	78, 935
Bst2UI	CCWGG	4 cut(s)	338, 423, 544, 591
Bst4CI	ACNGT	3 cut(s)	193, 295, 580
Bst6I	CTCTTC	2 cut(s)	324, 807
BstC8I	GCNNGC	1 cut(s)	460
BstDEI	CTNAG	3 cut(s)	152, 698, 770
BstF5I	GGATG	5 cut(s)	42, 178, 478, 609, 1033
BstHHI	GCGC	1 cut(s)	403
BstKTI	GATC	1 cut(s)	942
BstMAI	GTCTC	1 cut(s)	11
BstMBI	GATC	1 cut(s)	939
BstNI	CCWGG	4 cut(s)	338, 423, 544, 591
BstNSI	RCATGY	1 cut(s)	462
BstSCI	CCNGG	4 cut(s)	336, 421, 542, 589
BstSLI	GKGCMC	1 cut(s)	644
BstV1I	GCAGC	2 cut(s)	55, 188
BsuRI	GGCC	2 cut(s)	426, 589
BtrI	CACGTC	1 cut(s)	900
BtsCI	GGATG	5 cut(s)	42, 178, 478, 609, 1033
BtsIMutI	CAGTG	2 cut(s)	695, 767
BveI	ACCTGC	1 cut(s)	512
Cac8I	GCNNGC	1 cut(s)	460
CaiI	CAGNNNCTG	1 cut(s)	1050
CfoI	GCGC	1 cut(s)	403
Csp6I	GTAC	5 cut(s)	49, 447, 576, 599, 607
CspCI	CAANNNNNGTGG	2 cut(s)	1011, 1046
CviAII	CATG	4 cut(s)	459, 625, 951, 982
CviQI	GTAC	5 cut(s)	49, 447, 576, 599, 607
DdeI	CTNAG	3 cut(s)	152, 698, 770
DpnI	GATC	1 cut(s)	941
DpnII	GATC	1 cut(s)	939
Eam1104I	CTCTTC	2 cut(s)	324, 807
EarI	CTCTTC	2 cut(s)	324, 807
Eco130I	CCWWGG	2 cut(s)	78, 935
Eco147I	AGGCCT	1 cut(s)	589
Eco32I	GATATC	1 cut(s)	1036
Eco57I	CTGAAG	2 cut(s)	62, 1027
EcoRII	CCWGG	4 cut(s)	336, 421, 542, 589
EcoRV	GATATC	1 cut(s)	1036
EcoT14I	CCWWGG	2 cut(s)	78, 935
EcoT22I	ATGCAT	2 cut(s)	460, 464
ErhI	CCWWGG	2 cut(s)	78, 935
FaeI	CATG	4 cut(s)	462, 628, 954, 985
FaqI	GGGAC	1 cut(s)	426
FatI	CATG	4 cut(s)	458, 624, 950, 981
FauNDI	CATATG	1 cut(s)	22
Fnu4HI	GCNGC	2 cut(s)	69, 202
FokI	GGATG	5 cut(s)	49, 185, 485, 616, 1040
Fsp4HI	GCNGC	2 cut(s)	69, 202
FspAI	RTGCGCAY	1 cut(s)	402
FspBI	CTAG	3 cut(s)	240, 407, 936
FspI	TGCGCA	1 cut(s)	402
GlaI	GCGC	1 cut(s)	402
GluI	GCNGC	2 cut(s)	69, 202
GsuI	CTGGAG	1 cut(s)	522
HaeIII	GGCC	2 cut(s)	426, 589
HhaI	GCGC	1 cut(s)	403
Hin1II	CATG	4 cut(s)	462, 628, 954, 985
Hin6I	GCGC	1 cut(s)	401
HinP1I	GCGC	1 cut(s)	401
HinfI	GANTC	2 cut(s)	272, 1047
HphI	GGTGA	1 cut(s)	113
Hpy166II	GTNNAC	2 cut(s)	316, 599
Hpy188I	TCNGA	5 cut(s)	153, 514, 846, 1046, 1052
Hpy188III	TCNNGA	3 cut(s)	407, 501, 929
Hpy8I	GTNNAC	2 cut(s)	316, 599
HpyAV	CCTTC	3 cut(s)	7, 37, 353
HpyCH4III	ACNGT	3 cut(s)	193, 295, 580
HpyCH4IV	ACGT	2 cut(s)	222, 899
HpyCH4V	TGCA	6 cut(s)	71, 204, 458, 462, 637, 950
HpyF3I	CTNAG	3 cut(s)	152, 698, 770
HpySE526I	ACGT	2 cut(s)	222, 899
Hsp92II	CATG	4 cut(s)	462, 628, 954, 985
HspAI	GCGC	1 cut(s)	401
Kzo9I	GATC	1 cut(s)	939
LmnI	GCTCC	2 cut(s)	503, 652
Lsp1109I	GCAGC	2 cut(s)	55, 188
LweI	GCATC	3 cut(s)	27, 408, 412
MaeI	CTAG	3 cut(s)	240, 407, 936
MaeII	ACGT	2 cut(s)	222, 899
MalI	GATC	1 cut(s)	941
MboI	GATC	1 cut(s)	939
MboII	GAAGA	3 cut(s)	107, 341, 824
MhlI	GDGCHC	1 cut(s)	644
MluCI	AATT	9 cut(s)	183, 206, 231, 392, 565, 703, 775, 840, 857
MmeI	TCCRAC	3 cut(s)	228, 357, 886
MnlI	CCTC	7 cut(s)	102, 147, 272, 403, 508, 541, 816
Mph1103I	ATGCAT	2 cut(s)	460, 464
MroXI	GAANNNNTTC	1 cut(s)	840
MseI	TTAA	4 cut(s)	209, 267, 614, 978
MspR9I	CCNGG	4 cut(s)	338, 423, 544, 591
Mva1269I	GAATGC	2 cut(s)	403, 915
MvaI	CCWGG	4 cut(s)	338, 423, 544, 591
NdeI	CATATG	1 cut(s)	22
NdeII	GATC	1 cut(s)	939
NlaIII	CATG	4 cut(s)	462, 628, 954, 985
NsbI	TGCGCA	1 cut(s)	402
NsiI	ATGCAT	2 cut(s)	460, 464
NspI	RCATGY	1 cut(s)	462
PaeI	GCATGC	1 cut(s)	462
PaqCI	CACCTGC	1 cut(s)	512
PceI	AGGCCT	1 cut(s)	589
PctI	GAATGC	2 cut(s)	403, 915
PdmI	GAANNNNTTC	1 cut(s)	840
PfeI	GAWTC	2 cut(s)	272, 1047
PkrI	GCNGC	2 cut(s)	70, 203
Psp6I	CCWGG	4 cut(s)	336, 421, 542, 589
PspGI	CCWGG	4 cut(s)	336, 421, 542, 589
PsrI	GAACNNNNNNTAC	2 cut(s)	878, 910
PstNI	CAGNNNCTG	1 cut(s)	1050
RsaI	GTAC	5 cut(s)	50, 448, 577, 600, 608
RsaNI	GTAC	5 cut(s)	49, 447, 576, 599, 607
SaqAI	TTAA	4 cut(s)	209, 267, 614, 978
SatI	GCNGC	2 cut(s)	69, 202
Sau3AI	GATC	1 cut(s)	939
ScrFI	CCNGG	4 cut(s)	338, 423, 544, 591
SduI	GDGCHC	1 cut(s)	644
SfaNI	GCATC	3 cut(s)	27, 408, 412
SphI	GCATGC	1 cut(s)	462
Sse9I	AATT	9 cut(s)	183, 206, 231, 392, 565, 703, 775, 840, 857
SseBI	AGGCCT	1 cut(s)	589
SsiI	CCGC	1 cut(s)	677
SspI	AATATT	1 cut(s)	480
SspMI	CTAG	3 cut(s)	240, 407, 936
StuI	AGGCCT	1 cut(s)	589
StyD4I	CCNGG	4 cut(s)	336, 421, 542, 589
StyI	CCWWGG	2 cut(s)	78, 935
TaaI	ACNGT	3 cut(s)	193, 295, 580
TaiI	ACGT	2 cut(s)	225, 902
TaqI	TCGA	4 cut(s)	138, 195, 327, 1038
TasI	AATT	9 cut(s)	183, 206, 231, 392, 565, 703, 775, 840, 857
TatI	WGTACW	2 cut(s)	48, 606
TfiI	GAWTC	2 cut(s)	272, 1047
Tru1I	TTAA	4 cut(s)	209, 267, 614, 978
Tru9I	TTAA	4 cut(s)	209, 267, 614, 978
TscAI	CASTG	2 cut(s)	702, 774
TseI	GCWGC	2 cut(s)	68, 201
TspDTI	ATGAA	4 cut(s)	17, 195, 489, 981
TspGWI	ACGGA	4 cut(s)	185, 434, 616, 665
TspRI	CASTG	2 cut(s)	702, 774
XapI	RAATTY	2 cut(s)	703, 775
XbaI	TCTAGA	1 cut(s)	406
XceI	RCATGY	1 cut(s)	462
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1014
XmaJI	CCTAGG	1 cut(s)	935
XmnI	GAANNNNTTC	1 cut(s)	840
XspI	CTAG	3 cut(s)	240, 407, 936
Zsp2I	ATGCAT	2 cut(s)	460, 464

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