Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0006852

Physical Location & Seq

Genomic Coordinates Reverse (-)

7801149 .. 7805752

Gene Structure 4604 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000027031

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGGAGGAAATCAAGGTTCCCATCCAAGTTCGCATTCAGGGTCAAAATTCGGAGAAGTTGCAAGAAGCAGAAAAAGAAATAGAAAATAAATGGGCATATGTGGATGGTAAAAAGATGGAGATCAATAAAGCAAAGATCAAGCAACAATACACAGTGGATTTCACAAGTCCAAATCTTGTGGATAAGCAATGTGCAATTGTTACATATCTTATTGATACATTAGTTTTAAGACCTGGACATGTTAAGGACGAACAAATTACTGCACCTACTGTTGGATGTTGCACGTTAATGGTGAAAAATGTAATTTTACATAAACCCTCATGTTTGGAGTTTCGCTTTACTGGGAAAGCATCAGTCGACTACGAGAATGAGGTTGAAGTTGAAAACCTTGTGTTTAATTGCATAAAAGAATTCCAGCTTGGGAAATCTCCTGAAGACAATTTGTTTGACAAGTTGGATGCCAAAAAATTGAATAGATATTTACAAAACTTGGGAAAACCTTTTGGCCTCCATTTTACAGCAAAGACATTCCGCACATTTCGAGCATCTGAAATGATGGATGATTTGTTGAACAAGGAAGACTTGAAGGAGAAAACAGAAGAAGATAAGCTTGCTGTTTATTGGAATGCAAACAAGGAAGTTGCTGTTTTTCTAAATCATCGGAGAGAAGTGTCAGATTTTGAAGAGAAACAAGCTTGGGAGCTTAGCATACAGATCTTTGAACAAGAGGCGCAAAAATCAAAATTGGACACTCAAAAAACTCATCCAAGTAATGAGTATAATGCCTCAAACCTTGGAAAACTCAAGTTAGACATTGAAATAGAGAAGATAATGAAGAAAATTCATGAGCTGAGTCTACAAGAGCGTACCATAGCATGTAGTCAAACTTATCGATTAGAAACATCCAGAGAGAATTACCTTGATCCCAGGATTACTATCGCATGGTGTCTACGACATAGGATTTCAGTTTCTAAGGTGAGCATTTCTTTTGCTGCCGTTGGATATGGGAAAGAAATCTGA

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

340

Amino Acids

39.33

Weight (kDa)

6.44

Isoelectric Point (pI)

37.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I	PF01028	35 - 251	5.5e-55	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	279 - 326	9.2e-10	C-terminal topoisomerase domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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)	357, 856, 949
AciI	CCGC	1 cut(s)	532
AclWI	GGATC	1 cut(s)	917
AcsI	RAATTY	3 cut(s)	46, 410, 840
AcuI	CTGAAG	1 cut(s)	453
AfaI	GTAC	1 cut(s)	868
AfiI	CCNNNNNNNGG	1 cut(s)	272
AflIII	ACRYGT	1 cut(s)	238
AgsI	TTSAA	8 cut(s)	377, 383, 472, 571, 586, 683, 722, 818
AjnI	CCWGG	2 cut(s)	232, 926
AjuI	GAANNNNNNNTTGG	4 cut(s)	18, 50, 402, 434
AluBI	AGCT	5 cut(s)	418, 610, 695, 703, 850
AluI	AGCT	5 cut(s)	418, 610, 695, 703, 850
AlwI	GGATC	1 cut(s)	917
AoxI	GGCC	1 cut(s)	505
ApeKI	GCWGC	1 cut(s)	992
ApoI	RAATTY	3 cut(s)	46, 410, 840
ArsI	GACNNNNNNTTYG	2 cut(s)	428, 460
AspLEI	GCGC	1 cut(s)	733
AsuHPI	GGTGA	2 cut(s)	304, 988
BaeI	ACNNNNGTAYC	2 cut(s)	207, 240
BbsI	GAAGAC	2 cut(s)	441, 585
BbvI	GCAGC	1 cut(s)	979
BccI	CCATC	4 cut(s)	29, 98, 109, 550
BceAI	ACGGC	1 cut(s)	980
BciT130I	CCWGG	2 cut(s)	234, 928
BglII	AGATCT	1 cut(s)	714
BisI	GCNGC	1 cut(s)	993
BlpI	GCTNAGC	1 cut(s)	704
BlsI	GCNGC	1 cut(s)	994
Bme1390I	CCNGG	2 cut(s)	234, 928
BmiI	GGNNCC	1 cut(s)	18
BmrFI	CCNGG	2 cut(s)	234, 928
BmrI	ACTGGG	1 cut(s)	351
BmsI	GCATC	3 cut(s)	359, 448, 554
BmuI	ACTGGG	1 cut(s)	351
BpiI	GAAGAC	2 cut(s)	441, 585
Bpu1102I	GCTNAGC	1 cut(s)	704
BpuEI	CTTGAG	1 cut(s)	788
Bsa29I	ATCGAT	1 cut(s)	892
BsaBI	GATNNNNATC	2 cut(s)	119, 935
BsaJI	CCNNGG	2 cut(s)	793, 926
Bsc4I	CCNNNNNNNGG	1 cut(s)	272
Bse1I	ACTGG	1 cut(s)	346
Bse3DI	GCAATG	1 cut(s)	194
Bse8I	GATNNNNATC	2 cut(s)	119, 935
BseBI	CCWGG	2 cut(s)	234, 928
BseCI	ATCGAT	1 cut(s)	892
BseDI	CCNNGG	2 cut(s)	793, 926
BseGI	GGATG	7 cut(s)	21, 109, 281, 463, 565, 763, 902
BseJI	GATNNNNATC	2 cut(s)	119, 935
BseLI	CCNNNNNNNGG	1 cut(s)	272
BseMI	GCAATG	1 cut(s)	194
BseMII	CTCAG	1 cut(s)	842
BseNI	ACTGG	1 cut(s)	346
BseXI	GCAGC	1 cut(s)	979
BsgI	GTGCAG	1 cut(s)	246
BshFI	GGCC	1 cut(s)	507
BshVI	ATCGAT	1 cut(s)	892
BslI	CCNNNNNNNGG	1 cut(s)	272
BsmI	GAATGC	2 cut(s)	33, 631
BsnI	GGCC	1 cut(s)	507
Bsp143I	GATC	4 cut(s)	120, 135, 714, 922
Bsp1720I	GCTNAGC	1 cut(s)	704
BspACI	CCGC	1 cut(s)	532
BspANI	GGCC	1 cut(s)	507
BspCNI	CTCAG	1 cut(s)	843
BspDI	ATCGAT	1 cut(s)	892
BspHI	TCATGA	1 cut(s)	844
BspLI	GGNNCC	1 cut(s)	18
BspPI	GGATC	1 cut(s)	917
BsrDI	GCAATG	1 cut(s)	194
BsrI	ACTGG	1 cut(s)	346
BssECI	CCNNGG	2 cut(s)	793, 926
BssMI	GATC	4 cut(s)	120, 135, 714, 922
BssT1I	CCWWGG	1 cut(s)	793
Bst2UI	CCWGG	2 cut(s)	234, 928
Bst4CI	ACNGT	2 cut(s)	154, 271
Bst6I	CTCTTC	1 cut(s)	678
BstC8I	GCNNGC	1 cut(s)	612
BstDEI	CTNAG	3 cut(s)	704, 851, 972
BstF5I	GGATG	7 cut(s)	21, 109, 281, 463, 565, 763, 902
BstHHI	GCGC	1 cut(s)	733
BstKTI	GATC	4 cut(s)	123, 138, 717, 925
BstMBI	GATC	4 cut(s)	120, 135, 714, 922
BstNI	CCWGG	2 cut(s)	234, 928
BstNSI	RCATGY	2 cut(s)	242, 879
BstSCI	CCNGG	2 cut(s)	232, 926
BstV1I	GCAGC	1 cut(s)	979
BstV2I	GAAGAC	2 cut(s)	441, 585
BstX2I	RGATCY	1 cut(s)	714
BstYI	RGATCY	1 cut(s)	714
Bsu15I	ATCGAT	1 cut(s)	892
BsuRI	GGCC	1 cut(s)	507
BsuTUI	ATCGAT	1 cut(s)	892
BtsCI	GGATG	7 cut(s)	21, 109, 281, 463, 565, 763, 902
BtsIMutI	CAGTG	1 cut(s)	159
Cac8I	GCNNGC	1 cut(s)	612
CciI	TCATGA	1 cut(s)	844
CfoI	GCGC	1 cut(s)	733
ClaI	ATCGAT	1 cut(s)	892
Csp6I	GTAC	1 cut(s)	867
CspCI	CAANNNNNGTGG	2 cut(s)	159, 194
CviAII	CATG	5 cut(s)	239, 321, 845, 876, 942
CviJI	RGCY	6 cut(s)	418, 507, 610, 695, 703, 850
CviKI_1	RGCY	6 cut(s)	418, 507, 610, 695, 703, 850
CviQI	GTAC	1 cut(s)	867
DdeI	CTNAG	3 cut(s)	704, 851, 972
DpnI	GATC	4 cut(s)	122, 137, 716, 924
DpnII	GATC	4 cut(s)	120, 135, 714, 922
Eam1104I	CTCTTC	1 cut(s)	678
EarI	CTCTTC	1 cut(s)	678
Eco130I	CCWWGG	1 cut(s)	793
Eco57I	CTGAAG	1 cut(s)	453
EcoRI	GAATTC	1 cut(s)	410
EcoRII	CCWGG	2 cut(s)	232, 926
EcoT14I	CCWWGG	1 cut(s)	793
ErhI	CCWWGG	1 cut(s)	793
FaeI	CATG	5 cut(s)	242, 324, 848, 879, 945
FalI	AAGNNNNNCTT	4 cut(s)	566, 598, 594, 626
FatI	CATG	5 cut(s)	238, 320, 844, 875, 941
FauNDI	CATATG	1 cut(s)	97
FblI	GTMKAC	3 cut(s)	357, 856, 949
Fnu4HI	GCNGC	1 cut(s)	993
FokI	GGATG	7 cut(s)	8, 116, 288, 470, 572, 750, 889
Fsp4HI	GCNGC	1 cut(s)	993
GlaI	GCGC	1 cut(s)	732
GluI	GCNGC	1 cut(s)	993
HaeIII	GGCC	1 cut(s)	507
HhaI	GCGC	1 cut(s)	733
Hin1II	CATG	5 cut(s)	242, 324, 848, 879, 945
Hin6I	GCGC	1 cut(s)	731
HinP1I	GCGC	1 cut(s)	731
HincII	GTYRAC	1 cut(s)	358
HindII	GTYRAC	1 cut(s)	358
HindIII	AAGCTT	2 cut(s)	608, 693
HinfI	GANTC	1 cut(s)	853
HphI	GGTGA	2 cut(s)	304, 988
Hpy166II	GTNNAC	3 cut(s)	358, 857, 950
Hpy188I	TCNGA	5 cut(s)	52, 550, 663, 676, 1019
Hpy188III	TCNNGA	3 cut(s)	431, 845, 906
Hpy8I	GTNNAC	3 cut(s)	358, 857, 950
HpyAV	CCTTC	1 cut(s)	580
HpyCH4III	ACNGT	2 cut(s)	154, 271
HpyCH4IV	ACGT	1 cut(s)	284
HpyCH4V	TGCA	6 cut(s)	61, 194, 263, 282, 402, 629
HpyF3I	CTNAG	3 cut(s)	704, 851, 972
HpySE526I	ACGT	1 cut(s)	284
Hsp92II	CATG	5 cut(s)	242, 324, 848, 879, 945
HspAI	GCGC	1 cut(s)	731
Kzo9I	GATC	4 cut(s)	120, 135, 714, 922
LmnI	GCTCC	1 cut(s)	700
LpnPI	CCDG	9 cut(s)	23, 219, 246, 327, 428, 444, 913, 919, 940
Lsp1109I	GCAGC	1 cut(s)	979
LweI	GCATC	3 cut(s)	359, 448, 554
MaeII	ACGT	1 cut(s)	284
MaeIII	GTNAC	1 cut(s)	199
MalI	GATC	4 cut(s)	122, 137, 716, 924
MboI	GATC	4 cut(s)	120, 135, 714, 922
MboII	GAAGA	7 cut(s)	446, 590, 611, 614, 695, 838, 847
MfeI	CAATTG	1 cut(s)	195
MflI	RGATCY	1 cut(s)	714
MlyI	GAGTC	1 cut(s)	862
MmeI	TCCRAC	3 cut(s)	253, 435, 979
MnlI	CCTC	5 cut(s)	328, 364, 518, 721, 796
MseI	TTAA	4 cut(s)	227, 243, 287, 396
MslI	CAYNNNNRTG	1 cut(s)	287
MspR9I	CCNGG	2 cut(s)	234, 928
MunI	CAATTG	1 cut(s)	195
Mva1269I	GAATGC	2 cut(s)	33, 631
MvaI	CCWGG	2 cut(s)	234, 928
NdeI	CATATG	1 cut(s)	97
NdeII	GATC	4 cut(s)	120, 135, 714, 922
NlaIII	CATG	5 cut(s)	242, 324, 848, 879, 945
NlaIV	GGNNCC	1 cut(s)	18
NspI	RCATGY	2 cut(s)	242, 879
PagI	TCATGA	1 cut(s)	844
PciI	ACATGT	1 cut(s)	238
PctI	GAATGC	2 cut(s)	33, 631
PkrI	GCNGC	1 cut(s)	994
PleI	GAGTC	1 cut(s)	861
PpsI	GAGTC	1 cut(s)	861
PscI	ACATGT	1 cut(s)	238
Psp6I	CCWGG	2 cut(s)	232, 926
PspGI	CCWGG	2 cut(s)	232, 926
PspN4I	GGNNCC	1 cut(s)	18
PsuI	RGATCY	1 cut(s)	714
RsaI	GTAC	1 cut(s)	868
RsaNI	GTAC	1 cut(s)	867
RseI	CAYNNNNRTG	1 cut(s)	287
SalI	GTCGAC	1 cut(s)	356
SaqAI	TTAA	4 cut(s)	227, 243, 287, 396
SatI	GCNGC	1 cut(s)	993
Sau3AI	GATC	4 cut(s)	120, 135, 714, 922
SchI	GAGTC	1 cut(s)	862
ScrFI	CCNGG	2 cut(s)	234, 928
SfaNI	GCATC	3 cut(s)	359, 448, 554
SmiMI	CAYNNNNRTG	1 cut(s)	287
SmlI	CTYRAG	1 cut(s)	803
SmoI	CTYRAG	1 cut(s)	803
SsiI	CCGC	1 cut(s)	532
StyD4I	CCNGG	2 cut(s)	232, 926
StyI	CCWWGG	1 cut(s)	793
TaaI	ACNGT	2 cut(s)	154, 271
TaiI	ACGT	1 cut(s)	287
TaqI	TCGA	3 cut(s)	357, 541, 892
Tru1I	TTAA	4 cut(s)	227, 243, 287, 396
Tru9I	TTAA	4 cut(s)	227, 243, 287, 396
TscAI	CASTG	1 cut(s)	159
TseI	GCWGC	1 cut(s)	992
TspDTI	ATGAA	2 cut(s)	833, 848
TspRI	CASTG	1 cut(s)	159
XapI	RAATTY	3 cut(s)	46, 410, 840
XceI	RCATGY	2 cut(s)	242, 879
XmiI	GTMKAC	3 cut(s)	357, 856, 949

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