Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0016900

Physical Location & Seq

Genomic Coordinates Reverse (-)

11871875 .. 11880510

Gene Structure 8636 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001203

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1551 bp

ATGAAAGAATCCGACATAAATGAACAAAATATTCCCGAATCAAAAGTGGCTCTAGTCTATGGTCAAATGAATGAACCACCCGGAGCTCAGATGAGGGATCCGAAGTATCCCCTTTATTGGGTAGAATGCCTTTCGCTGTGGGTTGACCCACCCTCAGTACCGAAATGGGCTATTTACAAAATTACTTCTACAAAAGAGGGGTCCATAACTTCTATTCAAGCAGTTTATGTACCTACAGACGATTTGACCGATCTTGCTCTGACCACGATATTTGCACATTTAGATGCTACTACCGTACTATCAAGAGAAAAATGTTGTTCACCCAAAAAGGAGAAAGTTGTGGACGTTGTACACTATACTTACATTCCCAATCCTAAACCCCAACCTCTCTTCATCAGTTTGATTTTTGGAATGGAAAGTGCCAGGAAAAACTATAAGAAATCAAAGATGTTGGACCAAAAAGAAAGAAAGAAAGCAAAGATGCTGATGATTTCTGAAATGAAACGACAGAAGGAGACATATGAGAAAGCAAGGATGCTGAAGGAGTACATAGAAAATATCAGGGCTGCATACTCTAAGGATTTTACAAGTGAAGATGGTGAAAAGAGGCAGATGGCAGTTGCTACCTATCTTGTCGATAAACTTTGTCTGAGGGCTGGAAATGATATGGATGATGATGAAATTGATACTGTTGAGTGCTGCAAATTAAAAGTAGAGAACGTCAAAACAATTCCCCCTAACTCGTTGGAGTTCAACTTCCTCGTTAAAGATTCAATAAGATGTGAAAATACTGTTGACGTTGAGCTTCCTGTTTACAAGGCAATCGAAGAGTTCCTGGCTGGAAAGAATGGTAGTGAAGGTCTATTTGACAAGTTGGAGAATACCAGTAAATTGAATGCGCATCTAGAGGGACTGATGCCTGGCCTTACAGGAAAAGTATTCCGTACATACAATGCATGCATTACATTGGATGAAATATTGAACAAAGAAACTCCCTCTGGAGCTGTTTCAGAGAAAGCAGGTGTTTATAGACAGGCAACCAGGGAGGTTGCTATCATCTGTAATTTTCAGCGTACTGTCGCAAGGCCTGGTGGTGTACGGATGTACTGGTTAAAAGAGAACATGAGTGAGTTGCAGGGCACATTGACGGAGCTGAAAACAGATTTGGACAGGGCGGTAATGGGATTACCCCCACTGAGAAATTCTAATGGAAAACCAAATAGAACCCTGACAGATATGGACAGGGCAGTAATCGGATTACCCCCACTGAGAAATTCTAATGGAAAACGAAAGAGAACCCTGACCCCAGAAGAGTTAGAGAGGACGATAGCTGAAACAATTCAGATGATTGAAAAATTGGAACAGGATATGAGAACCCAAGAGAACCAGAAATACACGTCAGCTGGAATGCCCAAAATCAAGTATCTTGACCCTAGGATCACTGTTGCATGGTGTAAGCGAAATGAAGTTCCTATAGACAAGATATACACGGCGTATTATATGCCAATGTTTGAGTGGGCAATGGATGTGGATATCGACTTCAGATTCTGA

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

517

Amino Acids

59.09

Weight (kDa)

7.42

Isoelectric Point (pI)

35.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ATP-synt_ab	PF00006	64 - 103	1e-06	ATP synthase alpha/beta family, nucleotide-binding domain
Topoisom_I	PF01028	168 - 388	4.6e-68	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	449 - 516	2.8e-21	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: 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)	1010
Acc16I	TGCGCA	1 cut(s)	900
Acc36I	ACCTGC	1 cut(s)	1010
AciI	CCGC	1 cut(s)	1175
AclWI	GGATC	3 cut(s)	92, 105, 1445
AcsI	RAATTY	2 cut(s)	1201, 1273
AcuI	CTGAAG	2 cut(s)	560, 1525
AfaI	GTAC	9 cut(s)	159, 231, 297, 351, 548, 946, 1075, 1098, 1106
AfiI	CCNNNNNNNGG	2 cut(s)	117, 118
AflIII	ACRYGT	1 cut(s)	1395
AgsI	TTSAA	6 cut(s)	218, 754, 774, 895, 982, 1352
AjiI	CACGTC	1 cut(s)	1398
AjnI	CCWGG	5 cut(s)	422, 834, 919, 1040, 1087
AjuI	GAANNNNNNNTTGG	2 cut(s)	1148, 1180
AluBI	AGCT	6 cut(s)	86, 805, 1004, 1153, 1331, 1403
AluI	AGCT	6 cut(s)	86, 805, 1004, 1153, 1331, 1403
Alw21I	GWGCWC	1 cut(s)	88
Alw26I	GTCTC	1 cut(s)	509
AlwI	GGATC	3 cut(s)	92, 105, 1445
AlwNI	CAGNNNCTG	1 cut(s)	1548
AoxI	GGCC	2 cut(s)	922, 1085
ApeKI	GCWGC	2 cut(s)	566, 699
ApoI	RAATTY	2 cut(s)	1201, 1273
ArsI	GACNNNNNNTTYG	2 cut(s)	185, 217
Asp700I	GAANNNNTTC	1 cut(s)	1338
AspA2I	CCTAGG	1 cut(s)	1433
AspLEI	GCGC	1 cut(s)	901
AspS9I	GGNCC	2 cut(s)	201, 454
AsuC2I	CCSGG	1 cut(s)	81
AsuHPI	GGTGA	2 cut(s)	312, 611
AvaII	GGWCC	2 cut(s)	201, 454
AvrII	CCTAGG	1 cut(s)	1433
BaeGI	GKGCMC	1 cut(s)	1142
BamHI	GGATCC	1 cut(s)	97
BanII	GRGCYC	1 cut(s)	88
Bbv12I	GWGCWC	1 cut(s)	88
BbvI	GCAGC	2 cut(s)	553, 686
BccI	CCATC	2 cut(s)	590, 607
BceAI	ACGGC	1 cut(s)	1506
BciT130I	CCWGG	5 cut(s)	424, 836, 921, 1042, 1089
BciVI	GTATCC	1 cut(s)	117
BcnI	CCSGG	1 cut(s)	81
BcoDI	GTCTC	1 cut(s)	509
BfaI	CTAG	3 cut(s)	53, 905, 1434
BfmI	CTRYAG	2 cut(s)	234, 1473
BfuAI	ACCTGC	1 cut(s)	1010
BfuI	GTATCC	1 cut(s)	117
BisI	GCNGC	2 cut(s)	567, 700
BlnI	CCTAGG	1 cut(s)	1433
BlsI	GCNGC	2 cut(s)	568, 701
Bme1390I	CCNGG	6 cut(s)	81, 424, 836, 921, 1042, 1089
Bme18I	GGWCC	2 cut(s)	201, 454
BmgBI	CACGTC	1 cut(s)	1398
BmgT120I	GGNCC	2 cut(s)	201, 454
BmiI	GGNNCC	2 cut(s)	99, 202
BmrFI	CCNGG	6 cut(s)	81, 424, 836, 921, 1042, 1089
BmsI	GCATC	5 cut(s)	274, 471, 525, 906, 910
BpmI	CTGGAG	1 cut(s)	1020
BpuMI	CCSGG	1 cut(s)	81
BsaJI	CCNNGG	2 cut(s)	1041, 1433
Bsc4I	CCNNNNNNNGG	2 cut(s)	117, 118
Bse1I	ACTGG	2 cut(s)	885, 1112
Bse3DI	GCAATG	1 cut(s)	1527
BseBI	CCWGG	5 cut(s)	424, 836, 921, 1042, 1089
BseDI	CCNNGG	2 cut(s)	1041, 1433
BseGI	GGATG	5 cut(s)	540, 676, 976, 1107, 1531
BseLI	CCNNNNNNNGG	2 cut(s)	117, 118
BseMI	GCAATG	1 cut(s)	1527
BseMII	CTCAG	5 cut(s)	101, 168, 641, 1187, 1259
BseNI	ACTGG	2 cut(s)	885, 1112
BseSI	GKGCMC	1 cut(s)	1142
BseXI	GCAGC	2 cut(s)	553, 686
BshFI	GGCC	2 cut(s)	924, 1087
BsiHKAI	GWGCWC	1 cut(s)	88
BsiSI	CCGG	1 cut(s)	81
BslFI	GGGAC	1 cut(s)	924
BslI	CCNNNNNNNGG	2 cut(s)	117, 118
BsmAI	GTCTC	1 cut(s)	509
BsmFI	GGGAC	1 cut(s)	924
BsmI	GAATGC	3 cut(s)	131, 901, 1413
BsnI	GGCC	2 cut(s)	924, 1087
Bsp1286I	GDGCHC	2 cut(s)	88, 1142
Bsp1407I	TGTACA	1 cut(s)	349
Bsp143I	GATC	3 cut(s)	97, 250, 1437
BspACI	CCGC	1 cut(s)	1175
BspANI	GGCC	2 cut(s)	924, 1087
BspCNI	CTCAG	5 cut(s)	100, 167, 642, 1188, 1260
BspLI	GGNNCC	2 cut(s)	99, 202
BspMI	ACCTGC	1 cut(s)	1010
BspPI	GGATC	3 cut(s)	92, 105, 1445
BsrDI	GCAATG	1 cut(s)	1527
BsrGI	TGTACA	1 cut(s)	349
BsrI	ACTGG	2 cut(s)	885, 1112
BssECI	CCNNGG	2 cut(s)	1041, 1433
BssMI	GATC	3 cut(s)	97, 250, 1437
BssT1I	CCWWGG	1 cut(s)	1433
Bst2UI	CCWGG	5 cut(s)	424, 836, 921, 1042, 1089
Bst4CI	ACNGT	5 cut(s)	295, 691, 793, 1078, 1444
Bst6I	CTCTTC	3 cut(s)	395, 822, 1305
BstAUI	TGTACA	1 cut(s)	349
BstC8I	GCNNGC	1 cut(s)	958
BstDEI	CTNAG	6 cut(s)	87, 154, 576, 650, 1196, 1268
BstF5I	GGATG	5 cut(s)	540, 676, 976, 1107, 1531
BstHHI	GCGC	1 cut(s)	901
BstKTI	GATC	3 cut(s)	100, 253, 1440
BstMAI	GTCTC	1 cut(s)	509
BstMBI	GATC	3 cut(s)	97, 250, 1437
BstNI	CCWGG	5 cut(s)	424, 836, 921, 1042, 1089
BstNSI	RCATGY	1 cut(s)	960
BstSCI	CCNGG	6 cut(s)	79, 422, 834, 919, 1040, 1087
BstSFI	CTRYAG	2 cut(s)	234, 1473
BstSLI	GKGCMC	1 cut(s)	1142
BstV1I	GCAGC	2 cut(s)	553, 686
BstX2I	RGATCY	1 cut(s)	97
BstYI	RGATCY	1 cut(s)	97
BsuI	GTATCC	1 cut(s)	117
BsuRI	GGCC	2 cut(s)	924, 1087
BtrI	CACGTC	1 cut(s)	1398
BtsCI	GGATG	5 cut(s)	540, 676, 976, 1107, 1531
BtsIMutI	CAGTG	3 cut(s)	1193, 1265, 1440
BveI	ACCTGC	1 cut(s)	1010
Cac8I	GCNNGC	1 cut(s)	958
CaiI	CAGNNNCTG	1 cut(s)	1548
CfoI	GCGC	1 cut(s)	901
Cfr13I	GGNCC	2 cut(s)	201, 454
Csp6I	GTAC	9 cut(s)	158, 230, 296, 350, 547, 945, 1074, 1097, 1105
CspCI	CAANNNNNGTGG	4 cut(s)	253, 288, 1509, 1544
CviAII	CATG	3 cut(s)	957, 1123, 1449
CviQI	GTAC	9 cut(s)	158, 230, 296, 350, 547, 945, 1074, 1097, 1105
DdeI	CTNAG	6 cut(s)	87, 154, 576, 650, 1196, 1268
DpnI	GATC	3 cut(s)	99, 252, 1439
DpnII	GATC	3 cut(s)	97, 250, 1437
Eam1104I	CTCTTC	3 cut(s)	395, 822, 1305
EarI	CTCTTC	3 cut(s)	395, 822, 1305
Ecl136II	GAGCTC	1 cut(s)	86
Eco130I	CCWWGG	1 cut(s)	1433
Eco147I	AGGCCT	1 cut(s)	1087
Eco24I	GRGCYC	1 cut(s)	88
Eco32I	GATATC	1 cut(s)	1534
Eco47I	GGWCC	2 cut(s)	201, 454
Eco53kI	GAGCTC	1 cut(s)	86
Eco57I	CTGAAG	2 cut(s)	560, 1525
EcoICRI	GAGCTC	1 cut(s)	86
EcoRII	CCWGG	5 cut(s)	422, 834, 919, 1040, 1087
EcoRV	GATATC	1 cut(s)	1534
EcoT14I	CCWWGG	1 cut(s)	1433
EcoT22I	ATGCAT	2 cut(s)	958, 962
EcoT38I	GRGCYC	1 cut(s)	88
ErhI	CCWWGG	1 cut(s)	1433
FaeI	CATG	3 cut(s)	960, 1126, 1452
FaqI	GGGAC	1 cut(s)	924
FatI	CATG	3 cut(s)	956, 1122, 1448
FauNDI	CATATG	1 cut(s)	520
Fnu4HI	GCNGC	2 cut(s)	567, 700
FokI	GGATG	5 cut(s)	547, 683, 983, 1114, 1538
FriOI	GRGCYC	1 cut(s)	88
Fsp4HI	GCNGC	2 cut(s)	567, 700
FspAI	RTGCGCAY	1 cut(s)	900
FspBI	CTAG	3 cut(s)	53, 905, 1434
FspI	TGCGCA	1 cut(s)	900
GlaI	GCGC	1 cut(s)	900
GluI	GCNGC	2 cut(s)	567, 700
GsuI	CTGGAG	1 cut(s)	1020
HaeIII	GGCC	2 cut(s)	924, 1087
HapII	CCGG	1 cut(s)	81
HhaI	GCGC	1 cut(s)	901
Hin1II	CATG	3 cut(s)	960, 1126, 1452
Hin6I	GCGC	1 cut(s)	899
HinP1I	GCGC	1 cut(s)	899
HincII	GTYRAC	2 cut(s)	145, 796
HindII	GTYRAC	2 cut(s)	145, 796
HinfI	GANTC	4 cut(s)	8, 38, 770, 1545
HpaII	CCGG	1 cut(s)	81
HphI	GGTGA	2 cut(s)	312, 611
Hpy166II	GTNNAC	7 cut(s)	145, 320, 343, 352, 796, 814, 1097
Hpy188III	TCNNGA	5 cut(s)	35, 303, 905, 999, 1427
Hpy8I	GTNNAC	7 cut(s)	145, 320, 343, 352, 796, 814, 1097
HpyAV	CCTTC	3 cut(s)	505, 535, 851
HpyCH4III	ACNGT	5 cut(s)	295, 691, 793, 1078, 1444
HpyCH4IV	ACGT	4 cut(s)	345, 720, 798, 1397
HpyCH4V	TGCA	7 cut(s)	275, 569, 702, 956, 960, 1135, 1448
HpyF3I	CTNAG	6 cut(s)	87, 154, 576, 650, 1196, 1268
HpySE526I	ACGT	4 cut(s)	345, 720, 798, 1397
Hsp92II	CATG	3 cut(s)	960, 1126, 1452
HspAI	GCGC	1 cut(s)	899
Kzo9I	GATC	3 cut(s)	97, 250, 1437
LmnI	GCTCC	3 cut(s)	83, 1001, 1150
Lsp1109I	GCAGC	2 cut(s)	553, 686
LweI	GCATC	5 cut(s)	274, 471, 525, 906, 910
MaeI	CTAG	3 cut(s)	53, 905, 1434
MaeII	ACGT	4 cut(s)	345, 720, 798, 1397
MalI	GATC	3 cut(s)	99, 252, 1439
MboI	GATC	3 cut(s)	97, 250, 1437
MboII	GAAGA	4 cut(s)	382, 605, 839, 1322
MflI	RGATCY	1 cut(s)	97
MhlI	GDGCHC	2 cut(s)	88, 1142
MmeI	TCCRAC	4 cut(s)	36, 432, 726, 855
Mph1103I	ATGCAT	2 cut(s)	958, 962
MroXI	GAANNNNTTC	1 cut(s)	1338
MseI	TTAA	3 cut(s)	707, 765, 1112
MslI	CAYNNNNRTG	1 cut(s)	282
MspA1I	CMGCKG	1 cut(s)	1403
MspI	CCGG	1 cut(s)	81
MspR9I	CCNGG	6 cut(s)	81, 424, 836, 921, 1042, 1089
Mva1269I	GAATGC	3 cut(s)	131, 901, 1413
MvaI	CCWGG	5 cut(s)	424, 836, 921, 1042, 1089
NciI	CCSGG	1 cut(s)	81
NdeI	CATATG	1 cut(s)	520
NdeII	GATC	3 cut(s)	97, 250, 1437
NlaIII	CATG	3 cut(s)	960, 1126, 1452
NlaIV	GGNNCC	2 cut(s)	99, 202
NsbI	TGCGCA	1 cut(s)	900
NsiI	ATGCAT	2 cut(s)	958, 962
NspI	RCATGY	1 cut(s)	960
PaeI	GCATGC	1 cut(s)	960
PaqCI	CACCTGC	1 cut(s)	1010
PceI	AGGCCT	1 cut(s)	1087
PcsI	WCGNNNNNNNCGW	1 cut(s)	246
PctI	GAATGC	3 cut(s)	131, 901, 1413
PdmI	GAANNNNTTC	1 cut(s)	1338
PfeI	GAWTC	4 cut(s)	8, 38, 770, 1545
PkrI	GCNGC	2 cut(s)	568, 701
Psp124BI	GAGCTC	1 cut(s)	88
Psp6I	CCWGG	5 cut(s)	422, 834, 919, 1040, 1087
PspGI	CCWGG	5 cut(s)	422, 834, 919, 1040, 1087
PspN4I	GGNNCC	2 cut(s)	99, 202
PspPI	GGNCC	2 cut(s)	201, 454
PsrI	GAACNNNNNNTAC	2 cut(s)	1376, 1408
PstNI	CAGNNNCTG	1 cut(s)	1548
PsuI	RGATCY	1 cut(s)	97
PvuII	CAGCTG	1 cut(s)	1403
RsaI	GTAC	9 cut(s)	159, 231, 297, 351, 548, 946, 1075, 1098, 1106
RsaNI	GTAC	9 cut(s)	158, 230, 296, 350, 547, 945, 1074, 1097, 1105
RseI	CAYNNNNRTG	1 cut(s)	282
SacI	GAGCTC	1 cut(s)	88
SaqAI	TTAA	3 cut(s)	707, 765, 1112
SatI	GCNGC	2 cut(s)	567, 700
Sau3AI	GATC	3 cut(s)	97, 250, 1437
Sau96I	GGNCC	2 cut(s)	201, 454
ScrFI	CCNGG	6 cut(s)	81, 424, 836, 921, 1042, 1089
SduI	GDGCHC	2 cut(s)	88, 1142
SfaNI	GCATC	5 cut(s)	274, 471, 525, 906, 910
SfcI	CTRYAG	2 cut(s)	234, 1473
SinI	GGWCC	2 cut(s)	201, 454
SmiMI	CAYNNNNRTG	1 cut(s)	282
SphI	GCATGC	1 cut(s)	960
SseBI	AGGCCT	1 cut(s)	1087
SsiI	CCGC	1 cut(s)	1175
SspI	AATATT	2 cut(s)	31, 978
SspMI	CTAG	3 cut(s)	53, 905, 1434
SstI	GAGCTC	1 cut(s)	88
StuI	AGGCCT	1 cut(s)	1087
StyD4I	CCNGG	6 cut(s)	79, 422, 834, 919, 1040, 1087
StyI	CCWWGG	1 cut(s)	1433
TaaI	ACNGT	5 cut(s)	295, 691, 793, 1078, 1444
TaiI	ACGT	4 cut(s)	348, 723, 801, 1400
TaqI	TCGA	3 cut(s)	636, 825, 1536
TaqII	GACCGA	1 cut(s)	263
TatI	WGTACW	3 cut(s)	349, 546, 1104
TfiI	GAWTC	4 cut(s)	8, 38, 770, 1545
Tru1I	TTAA	3 cut(s)	707, 765, 1112
Tru9I	TTAA	3 cut(s)	707, 765, 1112
TscAI	CASTG	3 cut(s)	1200, 1272, 1447
TseI	GCWGC	2 cut(s)	566, 699
TspDTI	ATGAA	9 cut(s)	17, 36, 83, 87, 382, 515, 693, 987, 1479
TspGWI	ACGGA	3 cut(s)	932, 1114, 1163
TspRI	CASTG	3 cut(s)	1200, 1272, 1447
VpaK11BI	GGWCC	2 cut(s)	201, 454
XapI	RAATTY	2 cut(s)	1201, 1273
XbaI	TCTAGA	1 cut(s)	904
XceI	RCATGY	1 cut(s)	960
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1512
XmaJI	CCTAGG	1 cut(s)	1433
XmnI	GAANNNNTTC	1 cut(s)	1338
XspI	CTAG	3 cut(s)	53, 905, 1434
Zsp2I	ATGCAT	2 cut(s)	958, 962

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