Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0006852

Physical Location & Seq

Genomic Coordinates Forward (+)

19570144 .. 19571085

Gene Structure 942 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000007661

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGTTTGACATTTCAAAATTTAACACCGCGAGGAAACTAAAGATCAATCAAGCAGAGATCAAGCAACAATACACAGTGGATTTCACCAGTTCAAATCTTATGGATAAGCAATGTGCAATTGTTACATATCTTATTGATACATTAGCTTTAAGATCCGGACACGTTAAGGACGAAGAAATTACTGCACCTACTGTTGGATGTTGCACGTTAACGGTGAAAAATGTAATTTTACATGAACCCTCATGTTTGGAGTTTCGCTTTATTGGCAAAGCATCAGTCGACTACGAGAATGAGGTTGAAGTTGAAAACCTTGTGTTTAATTGCATTAAAGAATTCCAGCTTGGGAAATCTCCTGAAGACAATTTGTTTGACAAGTTGGATACCAACTTGGGAAAACCTTTTGGCCTCCATTTTACAGCAAAGACATACCGCACATTTCGAGTATCTGAAATGATGGATGATTTGTTGAACAAGGAAGAGTTGAAGGATAAAACAGAAGAAGATAAGCTTGTTGTTTACTGGAATGCAAACAAGGAAGTTGCTATTTTTCTAAATCATCAAAGAGAAGTGTCAAATTTTGAAGAGAAACAAGCTTGGGAGCTTAGCATACAGATCTGTGAACTAGAGGCGCAAAAATCAAAATTGGAGATTCAAAAAACTCATCCAAGTAATGAGTATAATGCCTCTAACGCTGGAAAACTCGAGTTAAACATTGAAATAGAGAAGATAATGAAGAAGATTCATGAGCTGAGTCTACAAGAGCGTACCATAATCTGCAGTCAAATTTATCGATTAGAAACATCTAGAGAGAATTACCTTGATTCCAGGATTACTGTTGCATGGTGTCTACGACATCGAAATTCAGTTTCTAAGATTTTTGATTCGCGTCTCCGAAACAAATTCATGTGGCCAATGAATGTGGAGTATGATTTTAGATATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0003674 GO:0003824 GO:0003916 GO:0003917 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005694 GO:0005730 GO:0006139 GO:0006259 GO:0006260 GO:0006265 GO:0006325 GO:0006338 GO:0006725 GO:0006807 GO:0006996 GO:0007059 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016020 GO:0016043 GO:0016853 GO:0031298 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0051276 GO:0070013 GO:0071103 GO:0071704 GO:0071840 GO:0090304 GO:0140097 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Topo_C_assoc Topoisom_I Topoisom_I_N

Protein Analysis

314

Amino Acids

36.74

Weight (kDa)

5.78

Isoelectric Point (pI)

36.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I	PF01028	3 - 216	2.2e-54	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	245 - 312	1.3e-15	C-terminal topoisomerase 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: OG0006852)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26701
rosa_chinensis	RchiOBHm_Chr1g0370531 RchiOBHm_Chr4g0420291 RchiOBHm_Chr4g0421651 RchiOBHm_Chr4g0421661
rosa_laevigata	RLG00000007661 RLG00000027031
rosa_multiflora	Rmu_sc0022275.1_g000007 Rmu_sc0026595.1_g000002
rosa_roxburghii	Rroxscaffold_5G00362880 Rroxscaffold_5G00362920
rosa_rugosa	Rorug01G0357400 Rorug04G0161800 Rorug04G0174200
rosa_samantha	Rh1AG366300 Rh1BG328900 Rh1BG329600 Rh1BG329800 Rh1CG342300 Rh1CG342400 Rh1CG343500 Rh1CG343700 Rh4BG236700 Rh4BG236800 Rh4CG248500 Rh4CG248600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	3 cut(s)	279, 754, 847
AccII	CGCG	2 cut(s)	29, 886
AccIII	TCCGGA	1 cut(s)	155
AciI	CCGC	2 cut(s)	27, 430
AclWI	GGATC	1 cut(s)	147
AcoI	YGGCCR	1 cut(s)	908
AcsI	RAATTY	6 cut(s)	17, 332, 574, 783, 859, 899
AcuI	CTGAAG	1 cut(s)	375
AfaI	GTAC	1 cut(s)	766
AfiI	CCNNNNNNNGG	1 cut(s)	194
AflIII	ACRYGT	1 cut(s)	160
AgsI	TTSAA	9 cut(s)	15, 93, 299, 305, 469, 484, 581, 653, 716
AjnI	CCWGG	1 cut(s)	824
AjuI	GAANNNNNNNTTGG	2 cut(s)	324, 356
AluBI	AGCT	6 cut(s)	146, 340, 508, 593, 601, 748
AluI	AGCT	6 cut(s)	146, 340, 508, 593, 601, 748
Alw26I	GTCTC	1 cut(s)	893
AlwI	GGATC	1 cut(s)	147
Ama87I	CYCGRG	1 cut(s)	701
Aor13HI	TCCGGA	1 cut(s)	155
AoxI	GGCC	2 cut(s)	403, 908
ApoI	RAATTY	6 cut(s)	17, 332, 574, 783, 859, 899
ArsI	GACNNNNNNTTYG	4 cut(s)	261, 293, 350, 382
AspLEI	GCGC	1 cut(s)	631
AsuHPI	GGTGA	2 cut(s)	76, 226
AvaI	CYCGRG	1 cut(s)	701
BalI	TGGCCA	1 cut(s)	910
BbsI	GAAGAC	1 cut(s)	363
BccI	CCATC	1 cut(s)	448
BciT130I	CCWGG	1 cut(s)	826
BciVI	GTATCC	1 cut(s)	373
BcoDI	GTCTC	1 cut(s)	893
BfaI	CTAG	2 cut(s)	623, 804
BfmI	CTRYAG	1 cut(s)	775
BfuI	GTATCC	1 cut(s)	373
BglII	AGATCT	1 cut(s)	612
BlpI	GCTNAGC	1 cut(s)	602
Bme1390I	CCNGG	1 cut(s)	826
BmeT110I	CYCGRG	1 cut(s)	701
BmrFI	CCNGG	1 cut(s)	826
BmsI	GCATC	1 cut(s)	281
BpiI	GAAGAC	1 cut(s)	363
Bpu1102I	GCTNAGC	1 cut(s)	602
Bsa29I	ATCGAT	1 cut(s)	790
BsaWI	WCCGGW	1 cut(s)	155
Bsc4I	CCNNNNNNNGG	1 cut(s)	194
Bse1I	ACTGG	2 cut(s)	87, 524
Bse3DI	GCAATG	1 cut(s)	116
BseAI	TCCGGA	1 cut(s)	155
BseBI	CCWGG	1 cut(s)	826
BseCI	ATCGAT	1 cut(s)	790
BseGI	GGATG	3 cut(s)	203, 463, 661
BseLI	CCNNNNNNNGG	1 cut(s)	194
BseMI	GCAATG	1 cut(s)	116
BseMII	CTCAG	1 cut(s)	740
BseNI	ACTGG	2 cut(s)	87, 524
BsgI	GTGCAG	1 cut(s)	168
Bsh1236I	CGCG	2 cut(s)	29, 886
BshFI	GGCC	2 cut(s)	405, 910
BshVI	ATCGAT	1 cut(s)	790
BsiHKCI	CYCGRG	1 cut(s)	701
BsiSI	CCGG	1 cut(s)	156
BslI	CCNNNNNNNGG	1 cut(s)	194
BsmAI	GTCTC	1 cut(s)	893
BsmBI	CGTCTC	1 cut(s)	893
BsmI	GAATGC	1 cut(s)	529
BsnI	GGCC	2 cut(s)	405, 910
BsoBI	CYCGRG	1 cut(s)	701
Bsp13I	TCCGGA	1 cut(s)	155
Bsp143I	GATC	4 cut(s)	42, 57, 152, 612
Bsp1720I	GCTNAGC	1 cut(s)	602
BspACI	CCGC	2 cut(s)	27, 430
BspANI	GGCC	2 cut(s)	405, 910
BspCNI	CTCAG	1 cut(s)	741
BspDI	ATCGAT	1 cut(s)	790
BspEI	TCCGGA	1 cut(s)	155
BspFNI	CGCG	2 cut(s)	29, 886
BspHI	TCATGA	1 cut(s)	742
BspMAI	CTGCAG	1 cut(s)	779
BspPI	GGATC	1 cut(s)	147
BsrDI	GCAATG	1 cut(s)	116
BsrI	ACTGG	2 cut(s)	87, 524
BssMI	GATC	4 cut(s)	42, 57, 152, 612
Bst2UI	CCWGG	1 cut(s)	826
Bst4CI	ACNGT	4 cut(s)	76, 193, 214, 835
Bst6I	CTCTTC	2 cut(s)	471, 576
BstDEI	CTNAG	3 cut(s)	602, 749, 870
BstF5I	GGATG	3 cut(s)	203, 463, 661
BstFNI	CGCG	2 cut(s)	29, 886
BstHHI	GCGC	1 cut(s)	631
BstKTI	GATC	4 cut(s)	45, 60, 155, 615
BstMAI	GTCTC	1 cut(s)	893
BstMBI	GATC	4 cut(s)	42, 57, 152, 612
BstMWI	GCNNNNNNNGC	2 cut(s)	264, 689
BstNI	CCWGG	1 cut(s)	826
BstSCI	CCNGG	1 cut(s)	824
BstSFI	CTRYAG	1 cut(s)	775
BstUI	CGCG	2 cut(s)	29, 886
BstV2I	GAAGAC	1 cut(s)	363
BstX2I	RGATCY	2 cut(s)	152, 612
BstYI	RGATCY	2 cut(s)	152, 612
Bsu15I	ATCGAT	1 cut(s)	790
BsuI	GTATCC	1 cut(s)	373
BsuRI	GGCC	2 cut(s)	405, 910
BsuTUI	ATCGAT	1 cut(s)	790
BtsCI	GGATG	3 cut(s)	203, 463, 661
BtsIMutI	CAGTG	1 cut(s)	81
CciI	TCATGA	1 cut(s)	742
CfoI	GCGC	1 cut(s)	631
ClaI	ATCGAT	1 cut(s)	790
CseI	GACGC	1 cut(s)	875
Csp6I	GTAC	1 cut(s)	765
CspCI	CAANNNNNGTGG	2 cut(s)	900, 935
CviAII	CATG	5 cut(s)	233, 243, 743, 840, 904
CviJI	RGCY	8 cut(s)	146, 340, 405, 508, 593, 601, 748, 910
CviKI_1	RGCY	8 cut(s)	146, 340, 405, 508, 593, 601, 748, 910
CviQI	GTAC	1 cut(s)	765
DdeI	CTNAG	3 cut(s)	602, 749, 870
DpnI	GATC	4 cut(s)	44, 59, 154, 614
DpnII	GATC	4 cut(s)	42, 57, 152, 612
EaeI	YGGCCR	1 cut(s)	908
Eam1104I	CTCTTC	2 cut(s)	471, 576
EarI	CTCTTC	2 cut(s)	471, 576
Eco57I	CTGAAG	1 cut(s)	375
Eco88I	CYCGRG	1 cut(s)	701
EcoRI	GAATTC	1 cut(s)	332
EcoRII	CCWGG	1 cut(s)	824
Esp3I	CGTCTC	1 cut(s)	893
FaeI	CATG	5 cut(s)	236, 246, 746, 843, 907
FalI	AAGNNNNNCTT	2 cut(s)	492, 524
FatI	CATG	5 cut(s)	232, 242, 742, 839, 903
FblI	GTMKAC	3 cut(s)	279, 754, 847
FokI	GGATG	3 cut(s)	210, 470, 648
FspBI	CTAG	2 cut(s)	623, 804
GlaI	GCGC	1 cut(s)	630
HaeIII	GGCC	2 cut(s)	405, 910
HapII	CCGG	1 cut(s)	156
HgaI	GACGC	1 cut(s)	875
HhaI	GCGC	1 cut(s)	631
Hin1II	CATG	5 cut(s)	236, 246, 746, 843, 907
Hin6I	GCGC	1 cut(s)	629
HinP1I	GCGC	1 cut(s)	629
HincII	GTYRAC	2 cut(s)	210, 280
HindII	GTYRAC	2 cut(s)	210, 280
HindIII	AAGCTT	2 cut(s)	506, 591
HinfI	GANTC	5 cut(s)	649, 739, 751, 821, 881
HpaI	GTTAAC	1 cut(s)	210
HpaII	CCGG	1 cut(s)	156
HphI	GGTGA	2 cut(s)	76, 226
Hpy166II	GTNNAC	6 cut(s)	210, 280, 517, 620, 755, 848
Hpy188I	TCNGA	2 cut(s)	448, 893
Hpy188III	TCNNGA	4 cut(s)	156, 353, 743, 804
Hpy8I	GTNNAC	6 cut(s)	210, 280, 517, 620, 755, 848
HpyAV	CCTTC	1 cut(s)	478
HpyCH4III	ACNGT	4 cut(s)	76, 193, 214, 835
HpyCH4IV	ACGT	2 cut(s)	162, 206
HpyCH4V	TGCA	7 cut(s)	116, 185, 204, 324, 527, 777, 839
HpyF10VI	GCNNNNNNNGC	2 cut(s)	264, 689
HpyF3I	CTNAG	3 cut(s)	602, 749, 870
HpySE526I	ACGT	2 cut(s)	162, 206
Hsp92II	CATG	5 cut(s)	236, 246, 746, 843, 907
HspAI	GCGC	1 cut(s)	629
Kpn2I	TCCGGA	1 cut(s)	155
KspAI	GTTAAC	1 cut(s)	210
Kzo9I	GATC	4 cut(s)	42, 57, 152, 612
LmnI	GCTCC	1 cut(s)	598
LpnPI	CCDG	8 cut(s)	100, 169, 350, 366, 505, 678, 811, 838
LweI	GCATC	1 cut(s)	281
MaeI	CTAG	2 cut(s)	623, 804
MaeII	ACGT	2 cut(s)	162, 206
MaeIII	GTNAC	1 cut(s)	121
MalI	GATC	4 cut(s)	44, 59, 154, 614
MboI	GATC	4 cut(s)	42, 57, 152, 612
MboII	GAAGA	9 cut(s)	185, 368, 488, 509, 512, 593, 736, 745, 748
MfeI	CAATTG	1 cut(s)	117
MflI	RGATCY	2 cut(s)	152, 612
MlsI	TGGCCA	1 cut(s)	910
MluNI	TGGCCA	1 cut(s)	910
MlyI	GAGTC	1 cut(s)	760
MmeI	TCCRAC	2 cut(s)	175, 357
MnlI	CCTC	6 cut(s)	24, 250, 286, 416, 619, 694
Mox20I	TGGCCA	1 cut(s)	910
MroI	TCCGGA	1 cut(s)	155
MscI	TGGCCA	1 cut(s)	910
MseI	TTAA	7 cut(s)	21, 149, 165, 209, 318, 327, 707
Msp20I	TGGCCA	1 cut(s)	910
MspI	CCGG	1 cut(s)	156
MspR9I	CCNGG	1 cut(s)	826
MunI	CAATTG	1 cut(s)	117
Mva1269I	GAATGC	1 cut(s)	529
MvaI	CCWGG	1 cut(s)	826
MvnI	CGCG	2 cut(s)	29, 886
MwoI	GCNNNNNNNGC	2 cut(s)	264, 689
NdeII	GATC	4 cut(s)	42, 57, 152, 612
NlaIII	CATG	5 cut(s)	236, 246, 746, 843, 907
PaeR7I	CTCGAG	1 cut(s)	701
PagI	TCATGA	1 cut(s)	742
PcsI	WCGNNNNNNNCGW	1 cut(s)	168
PctI	GAATGC	1 cut(s)	529
PfeI	GAWTC	4 cut(s)	649, 739, 821, 881
PfoI	TCCNGGA	1 cut(s)	824
PleI	GAGTC	1 cut(s)	759
PpsI	GAGTC	1 cut(s)	759
Psp6I	CCWGG	1 cut(s)	824
PspGI	CCWGG	1 cut(s)	824
PspXI	VCTCGAGB	1 cut(s)	701
PstI	CTGCAG	1 cut(s)	779
PsuI	RGATCY	2 cut(s)	152, 612
RsaI	GTAC	1 cut(s)	766
RsaNI	GTAC	1 cut(s)	765
SalI	GTCGAC	1 cut(s)	278
SaqAI	TTAA	7 cut(s)	21, 149, 165, 209, 318, 327, 707
Sau3AI	GATC	4 cut(s)	42, 57, 152, 612
SchI	GAGTC	1 cut(s)	760
ScrFI	CCNGG	1 cut(s)	826
SfaNI	GCATC	1 cut(s)	281
SfcI	CTRYAG	1 cut(s)	775
Sfr274I	CTCGAG	1 cut(s)	701
SlaI	CTCGAG	1 cut(s)	701
SmlI	CTYRAG	1 cut(s)	701
SmoI	CTYRAG	1 cut(s)	701
SsiI	CCGC	2 cut(s)	27, 430
SspMI	CTAG	2 cut(s)	623, 804
StyD4I	CCNGG	1 cut(s)	824
TaaI	ACNGT	4 cut(s)	76, 193, 214, 835
TaiI	ACGT	2 cut(s)	165, 209
TaqI	TCGA	5 cut(s)	279, 439, 702, 790, 856
TfiI	GAWTC	4 cut(s)	649, 739, 821, 881
Tru1I	TTAA	7 cut(s)	21, 149, 165, 209, 318, 327, 707
Tru9I	TTAA	7 cut(s)	21, 149, 165, 209, 318, 327, 707
TscAI	CASTG	1 cut(s)	81
TspDTI	ATGAA	5 cut(s)	249, 731, 746, 892, 929
TspRI	CASTG	1 cut(s)	81
XapI	RAATTY	6 cut(s)	17, 332, 574, 783, 859, 899
XbaI	TCTAGA	1 cut(s)	803
XhoI	CTCGAG	1 cut(s)	701
XmiI	GTMKAC	3 cut(s)	279, 754, 847
XspI	CTAG	2 cut(s)	623, 804

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