Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Reverse (-)

64473454 .. 64475898

Gene Structure 2445 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000015316

Sequence Viewer

CDS Protein Promoter (2k)

Length: 960 bp

ATGAACTGCGTGTCGCAGGTCTCATCGTACACGGCGGCGATTTTCCGAACGGCAGGTCGTTCATTCGGGACCGGTGCTCTGTACGGGCCCTGCAAGCGAAAATTGGACGTGAAGCTAATCAGCTTCGAATCGGCGGTTTCGAGGTTCCGGACTCAGCTCTACTCGTCTCAGAGCAAAGCGACGTCGTCTCGGCCGCGGAAGAAGAAGTCAGGAACCAAACGAGTCATGGACCCGGAAAAGGACGCATTCTATGTAGTCCGCAAAGGAAACGTCGTCGGTGTCTATAAGAGCTTCGCTGATTGCCAAGCTCAGCAAGCTTCTTCAATATGTGATCCTCCAATTAGTGTGTACAAAGGGTACTCTATGCCTAAGAAGGATGAGCAATATCTTGCTTCCTGTGGACTTCAGAATGCGCTTTACACTATTTCAGCTGCAGATATGAAGGATGAGCTTTTTGGCAAGCTTGTGGACTGTCATCTTGGAGATCCAGCATCTTCAAAAGGCGAAACGTCTGAGAAGACTGCAGCCAAGAAGAGATCCCACCAAGAGGCTGAAACAGAAAATGTGGGCTGTACCCTTCAATTTGATGGTGCATCAAAAGGAAATCCTGGAGCAGCTGGTGCTGGAGCTGTACTGCGAGCAGATGATGGAACCTTGATCTGTAAACTACGTGAAGGTCTGGGTGTTGCAACCAATAACGCTGCTGAGTACCGAGCTGTTATTTTAGGGTTAAAATATGCGCTTAAAAAAGGTTTTTCCAGGATTTTGGTTCAAGGTGACTCCAAGCTCGTCTGTATGCAGGTTCAGGGTTTATGGCAGGTGAAAAATCAGAACTTGTCTACTTTGTATGAAGAGGTGAAGAAACTGAAGGATGGATTTGTCTCCTTCAAGATCAGTCATGTTCTTAGGGTGAGAGAAGTTGATTCTGTTTGTCTCCTCTATGGTACTTTTTGTGGATAA

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

Cauli_VI DUF393 RVT_3

Protein Analysis

320

Amino Acids

34.67

Weight (kDa)

9.37

Isoelectric Point (pI)

29.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_H	PF00075	193 - 288	1.5e-08	RNase H
RVT_3	PF13456	195 - 303	3e-23	Reverse transcriptase-like

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: OG0001415)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_2g39271 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981 FvH4_4g34981
malus_domestica	MD15G1022000.v1.1 MD16G1087400.v1.1
prunus_persica	Prupe.1G259600_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1 Prupe.1G373800_v2.0.a1
pyrus_communis	pycom09g11760 pycom15g01830 pycom16g07500
rosa_chinensis	RchiOBHm_Chr4g0444511 RchiOBHm_Chr6g0245201 RchiOBHm_Chr6g0301731
rosa_laevigata	RLG00000005828 RLG00000011227 RLG00000015316
rosa_roxburghii	Rroxscaffold_3G00242180 Rroxscaffold_5G00384990 Rroxscaffold_7G00166470 Rroxscaffold_7G00215360
rosa_rugosa	Rorug03G0154200
rosa_samantha	Rh4AG413500 Rh4BG425000 Rh4CG439600 Rh4DG420500 Rh6AG027900 Rh6AG421000 Rh6BG024100 Rh6BG427700 Rh6CG434300 Rh6DG421200
rosa_wichuraiana	Rw4G035520 Rw6G002360 Rw6G036440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	808
AatII	GACGTC	1 cut(s)	185
Acc36I	ACCTGC	4 cut(s)	7, 44, 790, 808
AccI	GTMKAC	1 cut(s)	839
AccII	CGCG	1 cut(s)	196
AccIII	TCCGGA	1 cut(s)	147
AciI	CCGC	5 cut(s)	35, 134, 194, 196, 259
AclWI	GGATC	3 cut(s)	326, 479, 531
AcoI	YGGCCR	1 cut(s)	191
AcuI	CTGAAG	2 cut(s)	389, 887
AcyI	GRCGYC	1 cut(s)	182
AfaI	GTAC	8 cut(s)	29, 83, 350, 359, 574, 633, 710, 946
AfiI	CCNNNNNNNGG	2 cut(s)	238, 547
AgeI	ACCGGT	1 cut(s)	71
AgsI	TTSAA	5 cut(s)	324, 498, 581, 773, 889
AjiI	CACGTC	1 cut(s)	109
AjnI	CCWGG	2 cut(s)	607, 758
Alw21I	GWGCWC	1 cut(s)	79
Alw26I	GTCTC	5 cut(s)	25, 171, 192, 886, 938
AlwI	GGATC	3 cut(s)	326, 479, 531
Aor13HI	TCCGGA	1 cut(s)	147
AoxI	GGCC	2 cut(s)	86, 191
ApaI	GGGCCC	1 cut(s)	90
ApeKI	GCWGC	4 cut(s)	431, 524, 614, 701
ArsI	GACNNNNNNTTYG	4 cut(s)	40, 72, 255, 287
AsiGI	ACCGGT	1 cut(s)	71
AspLEI	GCGC	2 cut(s)	415, 742
AspS9I	GGNCC	4 cut(s)	69, 86, 87, 229
AsuC2I	CCSGG	1 cut(s)	233
AsuHPI	GGTGA	4 cut(s)	788, 832, 868, 922
AsuII	TTCGAA	1 cut(s)	126
AvaII	GGWCC	2 cut(s)	69, 229
BaeGI	GKGCMC	1 cut(s)	90
BanII	GRGCYC	1 cut(s)	90
BbsI	GAAGAC	1 cut(s)	524
Bbv12I	GWGCWC	1 cut(s)	79
BbvI	GCAGC	4 cut(s)	418, 536, 626, 688
BccI	CCATC	3 cut(s)	581, 641, 866
BceAI	ACGGC	2 cut(s)	48, 66
BciT130I	CCWGG	2 cut(s)	609, 760
BcnI	CCSGG	1 cut(s)	233
BcoDI	GTCTC	5 cut(s)	25, 171, 192, 886, 938
BfmI	CTRYAG	2 cut(s)	432, 522
BfuAI	ACCTGC	4 cut(s)	7, 44, 790, 808
BisI	GCNGC	6 cut(s)	36, 194, 432, 525, 615, 702
BlpI	GCTNAGC	1 cut(s)	309
BlsI	GCNGC	6 cut(s)	37, 195, 433, 526, 616, 703
Bme1390I	CCNGG	3 cut(s)	233, 609, 760
Bme18I	GGWCC	2 cut(s)	69, 229
BmgBI	CACGTC	1 cut(s)	109
BmgT120I	GGNCC	4 cut(s)	69, 86, 87, 229
BmiI	GGNNCC	6 cut(s)	70, 88, 146, 214, 231, 652
BmrFI	CCNGG	3 cut(s)	233, 609, 760
BmsI	GCATC	2 cut(s)	500, 602
BpiI	GAAGAC	1 cut(s)	524
BpmI	CTGGAG	2 cut(s)	630, 645
Bpu1102I	GCTNAGC	1 cut(s)	309
Bpu14I	TTCGAA	1 cut(s)	126
BpuMI	CCSGG	1 cut(s)	233
BsaAI	YACGTR	1 cut(s)	671
BsaHI	GRCGYC	1 cut(s)	182
BsaI	GGTCTC	1 cut(s)	25
BsaJI	CCNNGG	1 cut(s)	194
BsaWI	WCCGGW	2 cut(s)	71, 147
Bsc4I	CCNNNNNNNGG	2 cut(s)	238, 547
Bse118I	RCCGGY	1 cut(s)	71
BseAI	TCCGGA	1 cut(s)	147
BseBI	CCWGG	2 cut(s)	609, 760
BseDI	CCNNGG	1 cut(s)	194
BseGI	GGATG	3 cut(s)	382, 451, 877
BseLI	CCNNNNNNNGG	2 cut(s)	238, 547
BseMII	CTCAG	5 cut(s)	167, 182, 323, 504, 696
BseRI	GAGGAG	1 cut(s)	926
BseSI	GKGCMC	1 cut(s)	90
BseX3I	CGGCCG	1 cut(s)	191
BseXI	GCAGC	4 cut(s)	418, 536, 626, 688
Bsh1236I	CGCG	1 cut(s)	196
Bsh1285I	CGRYCG	1 cut(s)	194
BshFI	GGCC	2 cut(s)	88, 193
BshTI	ACCGGT	1 cut(s)	71
BsiEI	CGRYCG	1 cut(s)	194
BsiHKAI	GWGCWC	1 cut(s)	79
BsiSI	CCGG	3 cut(s)	72, 148, 233
BslFI	GGGAC	1 cut(s)	82
BslI	CCNNNNNNNGG	2 cut(s)	238, 547
BsmAI	GTCTC	5 cut(s)	25, 171, 192, 886, 938
BsmBI	CGTCTC	2 cut(s)	171, 192
BsmFI	GGGAC	1 cut(s)	82
BsmI	GAATGC	2 cut(s)	245, 415
BsnI	GGCC	2 cut(s)	88, 193
Bso31I	GGTCTC	1 cut(s)	25
Bsp119I	TTCGAA	1 cut(s)	126
Bsp120I	GGGCCC	1 cut(s)	86
Bsp1286I	GDGCHC	2 cut(s)	79, 90
Bsp13I	TCCGGA	1 cut(s)	147
Bsp1407I	TGTACA	1 cut(s)	348
Bsp143I	GATC	5 cut(s)	331, 484, 536, 657, 891
Bsp1720I	GCTNAGC	1 cut(s)	309
BspACI	CCGC	5 cut(s)	35, 134, 194, 196, 259
BspANI	GGCC	2 cut(s)	88, 193
BspCNI	CTCAG	5 cut(s)	166, 181, 322, 505, 697
BspEI	TCCGGA	1 cut(s)	147
BspFNI	CGCG	1 cut(s)	196
BspLI	GGNNCC	6 cut(s)	70, 88, 146, 214, 231, 652
BspMAI	CTGCAG	2 cut(s)	436, 526
BspMI	ACCTGC	4 cut(s)	7, 44, 790, 808
BspPI	GGATC	3 cut(s)	326, 479, 531
BspT104I	TTCGAA	1 cut(s)	126
BspTNI	GGTCTC	1 cut(s)	25
BsrFI	RCCGGY	1 cut(s)	71
BsrGI	TGTACA	1 cut(s)	348
BssAI	RCCGGY	1 cut(s)	71
BssECI	CCNNGG	1 cut(s)	194
BssMI	GATC	5 cut(s)	331, 484, 536, 657, 891
BssNI	GRCGYC	1 cut(s)	182
Bst2UI	CCWGG	2 cut(s)	609, 760
Bst4CI	ACNGT	1 cut(s)	473
Bst6I	CTCTTC	2 cut(s)	527, 846
BstACI	GRCGYC	1 cut(s)	182
BstAPI	GCANNNNNTGC	1 cut(s)	620
BstAUI	TGTACA	1 cut(s)	348
BstBAI	YACGTR	1 cut(s)	671
BstBI	TTCGAA	1 cut(s)	126
BstC8I	GCNNGC	4 cut(s)	95, 315, 461, 639
BstDEI	CTNAG	7 cut(s)	153, 168, 309, 369, 513, 705, 905
BstDSI	CCRYGG	1 cut(s)	194
BstF5I	GGATG	3 cut(s)	382, 451, 877
BstFNI	CGCG	1 cut(s)	196
BstHHI	GCGC	2 cut(s)	415, 742
BstKTI	GATC	5 cut(s)	334, 487, 539, 660, 894
BstMAI	GTCTC	5 cut(s)	25, 171, 192, 886, 938
BstMBI	GATC	5 cut(s)	331, 484, 536, 657, 891
BstMCI	CGRYCG	1 cut(s)	194
BstMWI	GCNNNNNNNGC	3 cut(s)	94, 314, 620
BstNI	CCWGG	2 cut(s)	609, 760
BstSCI	CCNGG	3 cut(s)	231, 607, 758
BstSFI	CTRYAG	2 cut(s)	432, 522
BstSLI	GKGCMC	1 cut(s)	90
BstUI	CGCG	1 cut(s)	196
BstV1I	GCAGC	4 cut(s)	418, 536, 626, 688
BstV2I	GAAGAC	1 cut(s)	524
BstX2I	RGATCY	2 cut(s)	484, 536
BstXI	CCANNNNNNTGG	1 cut(s)	766
BstYI	RGATCY	2 cut(s)	484, 536
BstZI	CGGCCG	1 cut(s)	191
BsuRI	GGCC	2 cut(s)	88, 193
BtgI	CCRYGG	1 cut(s)	194
BtrI	CACGTC	1 cut(s)	109
BtsCI	GGATG	3 cut(s)	382, 451, 877
BveI	ACCTGC	4 cut(s)	7, 44, 790, 808
Cac8I	GCNNGC	4 cut(s)	95, 315, 461, 639
CfoI	GCGC	2 cut(s)	415, 742
Cfr10I	RCCGGY	1 cut(s)	71
Cfr13I	GGNCC	4 cut(s)	69, 86, 87, 229
Cfr42I	CCGCGG	1 cut(s)	197
CseI	GACGC	1 cut(s)	251
Csp6I	GTAC	8 cut(s)	28, 82, 349, 358, 573, 632, 709, 945
CspAI	ACCGGT	1 cut(s)	71
CviAII	CATG	2 cut(s)	226, 899
CviQI	GTAC	8 cut(s)	28, 82, 349, 358, 573, 632, 709, 945
DdeI	CTNAG	7 cut(s)	153, 168, 309, 369, 513, 705, 905
DpnI	GATC	5 cut(s)	333, 486, 538, 659, 893
DpnII	GATC	5 cut(s)	331, 484, 536, 657, 891
EaeI	YGGCCR	1 cut(s)	191
EagI	CGGCCG	1 cut(s)	191
Eam1104I	CTCTTC	2 cut(s)	527, 846
EarI	CTCTTC	2 cut(s)	527, 846
EclXI	CGGCCG	1 cut(s)	191
Eco24I	GRGCYC	1 cut(s)	90
Eco31I	GGTCTC	1 cut(s)	25
Eco47I	GGWCC	2 cut(s)	69, 229
Eco52I	CGGCCG	1 cut(s)	191
Eco57I	CTGAAG	2 cut(s)	389, 887
EcoO109I	RGGNCCY	1 cut(s)	87
EcoRII	CCWGG	2 cut(s)	607, 758
EcoT38I	GRGCYC	1 cut(s)	90
Esp3I	CGTCTC	2 cut(s)	171, 192
FaeI	CATG	2 cut(s)	229, 902
FaqI	GGGAC	1 cut(s)	82
FatI	CATG	2 cut(s)	225, 898
FblI	GTMKAC	1 cut(s)	839
Fnu4HI	GCNGC	6 cut(s)	36, 194, 432, 525, 615, 702
FokI	GGATG	3 cut(s)	389, 458, 884
FriOI	GRGCYC	1 cut(s)	90
Fsp4HI	GCNGC	6 cut(s)	36, 194, 432, 525, 615, 702
GlaI	GCGC	2 cut(s)	414, 741
GluI	GCNGC	6 cut(s)	36, 194, 432, 525, 615, 702
GsuI	CTGGAG	2 cut(s)	630, 645
HaeIII	GGCC	2 cut(s)	88, 193
HapII	CCGG	3 cut(s)	72, 148, 233
HgaI	GACGC	1 cut(s)	251
HhaI	GCGC	2 cut(s)	415, 742
Hin1I	GRCGYC	1 cut(s)	182
Hin1II	CATG	2 cut(s)	229, 902
Hin6I	GCGC	2 cut(s)	413, 740
HinP1I	GCGC	2 cut(s)	413, 740
HindIII	AAGCTT	2 cut(s)	315, 461
HinfI	GANTC	5 cut(s)	128, 151, 222, 779, 923
HpaII	CCGG	3 cut(s)	72, 148, 233
HphI	GGTGA	4 cut(s)	788, 832, 868, 922
Hpy166II	GTNNAC	6 cut(s)	30, 349, 401, 469, 665, 840
Hpy188I	TCNGA	5 cut(s)	47, 171, 408, 514, 831
Hpy188III	TCNNGA	4 cut(s)	67, 148, 210, 889
Hpy8I	GTNNAC	6 cut(s)	30, 349, 401, 469, 665, 840
Hpy99I	CGWCG	4 cut(s)	184, 187, 275, 278
HpyAV	CCTTC	6 cut(s)	367, 436, 587, 668, 862, 895
HpyCH4III	ACNGT	1 cut(s)	473
HpyCH4IV	ACGT	5 cut(s)	108, 182, 270, 509, 670
HpyCH4V	TGCA	6 cut(s)	93, 434, 524, 593, 689, 799
HpyF10VI	GCNNNNNNNGC	3 cut(s)	94, 314, 620
HpyF3I	CTNAG	7 cut(s)	153, 168, 309, 369, 513, 705, 905
HpySE526I	ACGT	5 cut(s)	108, 182, 270, 509, 670
Hsp92I	GRCGYC	1 cut(s)	182
Hsp92II	CATG	2 cut(s)	229, 902
HspAI	GCGC	2 cut(s)	413, 740
Kpn2I	TCCGGA	1 cut(s)	147
KspI	CCGCGG	1 cut(s)	197
Kzo9I	GATC	5 cut(s)	331, 484, 536, 657, 891
LmnI	GCTCC	2 cut(s)	611, 626
Lsp1109I	GCAGC	4 cut(s)	418, 536, 626, 688
LweI	GCATC	2 cut(s)	500, 602
MaeII	ACGT	5 cut(s)	108, 182, 270, 509, 670
MaeIII	GTNAC	1 cut(s)	776
MalI	GATC	5 cut(s)	333, 486, 538, 659, 893
MboI	GATC	5 cut(s)	331, 484, 536, 657, 891
MboII	GAAGA	8 cut(s)	211, 214, 312, 486, 529, 544, 863, 871
MflI	RGATCY	2 cut(s)	484, 536
MhlI	GDGCHC	2 cut(s)	79, 90
MluCI	AATT	3 cut(s)	101, 339, 581
MlyI	GAGTC	3 cut(s)	145, 231, 773
MnlI	CCTC	5 cut(s)	135, 345, 541, 847, 947
MroI	TCCGGA	1 cut(s)	147
MseI	TTAA	2 cut(s)	731, 744
MspA1I	CMGCKG	3 cut(s)	196, 431, 617
MspI	CCGG	3 cut(s)	72, 148, 233
MspR9I	CCNGG	3 cut(s)	233, 609, 760
Mva1269I	GAATGC	2 cut(s)	245, 415
MvaI	CCWGG	2 cut(s)	609, 760
MvnI	CGCG	1 cut(s)	196
MwoI	GCNNNNNNNGC	3 cut(s)	94, 314, 620
NciI	CCSGG	1 cut(s)	233
NdeII	GATC	5 cut(s)	331, 484, 536, 657, 891
NlaIII	CATG	2 cut(s)	229, 902
NlaIV	GGNNCC	6 cut(s)	70, 88, 146, 214, 231, 652
NmeAIII	GCCGAG	1 cut(s)	169
NmuCI	GTSAC	1 cut(s)	776
NspV	TTCGAA	1 cut(s)	126
PaqCI	CACCTGC	1 cut(s)	808
PcsI	WCGNNNNNNNCGW	1 cut(s)	137
PctI	GAATGC	2 cut(s)	245, 415
PfeI	GAWTC	2 cut(s)	128, 923
PflFI	GACNNNGTC	1 cut(s)	184
PfoI	TCCNGGA	2 cut(s)	607, 758
PinAI	ACCGGT	1 cut(s)	71
PkrI	GCNGC	6 cut(s)	37, 195, 433, 526, 616, 703
PleI	GAGTC	3 cut(s)	145, 230, 773
PpsI	GAGTC	3 cut(s)	145, 230, 773
Ppu21I	YACGTR	1 cut(s)	671
Psp6I	CCWGG	2 cut(s)	607, 758
PspGI	CCWGG	2 cut(s)	607, 758
PspN4I	GGNNCC	6 cut(s)	70, 88, 146, 214, 231, 652
PspOMI	GGGCCC	1 cut(s)	86
PspPI	GGNCC	4 cut(s)	69, 86, 87, 229
PstI	CTGCAG	2 cut(s)	436, 526
PsuI	RGATCY	2 cut(s)	484, 536
PsyI	GACNNNGTC	1 cut(s)	184
PvuII	CAGCTG	2 cut(s)	431, 617
RsaI	GTAC	8 cut(s)	29, 83, 350, 359, 574, 633, 710, 946
RsaNI	GTAC	8 cut(s)	28, 82, 349, 358, 573, 632, 709, 945
SacII	CCGCGG	1 cut(s)	197
SaqAI	TTAA	2 cut(s)	731, 744
SatI	GCNGC	6 cut(s)	36, 194, 432, 525, 615, 702
Sau3AI	GATC	5 cut(s)	331, 484, 536, 657, 891
Sau96I	GGNCC	4 cut(s)	69, 86, 87, 229
SchI	GAGTC	3 cut(s)	145, 231, 773
ScrFI	CCNGG	3 cut(s)	233, 609, 760
SduI	GDGCHC	2 cut(s)	79, 90
SfaNI	GCATC	2 cut(s)	500, 602
SfcI	CTRYAG	2 cut(s)	432, 522
Sfr303I	CCGCGG	1 cut(s)	197
SfuI	TTCGAA	1 cut(s)	126
SgrBI	CCGCGG	1 cut(s)	197
SinI	GGWCC	2 cut(s)	69, 229
Sse9I	AATT	3 cut(s)	101, 339, 581
SsiI	CCGC	5 cut(s)	35, 134, 194, 196, 259
StyD4I	CCNGG	3 cut(s)	231, 607, 758
TaaI	ACNGT	1 cut(s)	473
TaiI	ACGT	5 cut(s)	111, 185, 273, 512, 673
TaqI	TCGA	2 cut(s)	126, 140
TasI	AATT	3 cut(s)	101, 339, 581
TatI	WGTACW	2 cut(s)	348, 631
TauI	GCSGC	2 cut(s)	38, 196
TfiI	GAWTC	2 cut(s)	128, 923
Tru1I	TTAA	2 cut(s)	731, 744
Tru9I	TTAA	2 cut(s)	731, 744
TseFI	GTSAC	1 cut(s)	776
TseI	GCWGC	4 cut(s)	431, 524, 614, 701
Tsp45I	GTSAC	1 cut(s)	776
TspDTI	ATGAA	4 cut(s)	17, 51, 455, 864
Tth111I	GACNNNGTC	1 cut(s)	184
VpaK11BI	GGWCC	2 cut(s)	69, 229
XcmI	CCANNNNNNNNNTGG	1 cut(s)	223
XmiI	GTMKAC	1 cut(s)	839
ZraI	GACGTC	1 cut(s)	183

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