Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0001415

Physical Location & Seq

Genomic Coordinates Reverse (-)

7803444 .. 7806305

Gene Structure 2862 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000011227

Sequence Viewer

CDS Protein Promoter (2k)

Length: 855 bp

ATGGACCCAGAAAAGGACGCATTCTATGTAGTCCTCAAAGGAAATGTCGTCGGTGTCTATAAGAGCTTCGCTAATTGCCAAGCTGAGCAAGGCTCTTCGGTATGTGATCCTCCTATTAGTGTGTACAAAGGGCACTCTATGCCTAAGAAGGATGAACAATATCTTGCTTCCTGTGGACTTCAGAATGCGCTTTACACTATTTCAGCTGCAGATATGAAAGATGAGCTTTTTGGCAAGCTTGTGGACTGTCCTCTTGGACATCTTCAAAAGGCGAAACGTCTGATAAGACTGCAGCCAAGATATAAGAGATCCCACCAAGAGGCTGAATCAGAAAATGTGGAAGTAATTGGTTCAACTTCTGTATCAGATACTCCTTCCAGAAAGCAGGCCAAGAAAAAGGCTGAAGTTGAAGTTCCCCCTTCTGGCCGTGGCTGTACTCTTCAATTTGATGGTGCATCTAAAGGAAATCCTGGAGTAGCTGGTGCTGGAGCTGTACTGCGAGCAGATGATGGAACCTTGATCTGTAAACTACGTGAAGGTCTGGGTGTTGCAACCAGTAACGCTGCTGAGTACCGAGCTGTTATTATAGGGTTAAAATATGCGCTTAAAAAAGGTTTTTCCAGAATTTTTGTTCAAGGTGACTCCAAACTCGTCTGTATGCAGGTTCAGGGTTTATGGCAGGTGAAAAACCAGAACTTGTCTACTTTGTATGAAGAGGTGAAGAAACTGAAGGATGGATTTGTCTCCTTTAAGATCAGTCATGTTCTTAGGGAGCTAAATTCTGAGGCAGATGCTCAAGCAAACTTGGCAATCACCCTTGCCGATGGTCAAGTCCAGGAAGAGTCTGGGAAGTAG

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

285

Amino Acids

30.8

Weight (kDa)

8.7

Isoelectric Point (pI)

31.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNase_H	PF00075	147 - 242	6.9e-07	RNase H
RVT_3	PF13456	149 - 269	1.1e-27	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	670
Acc36I	ACCTGC	2 cut(s)	652, 670
AccI	GTMKAC	1 cut(s)	701
AclWI	GGATC	2 cut(s)	101, 303
AcoI	YGGCCR	1 cut(s)	424
AcsI	RAATTY	2 cut(s)	624, 778
AcuI	CTGAAG	3 cut(s)	164, 423, 749
AfaI	GTAC	4 cut(s)	125, 436, 495, 572
AfiI	CCNNNNNNNGG	3 cut(s)	13, 319, 422
AgsI	TTSAA	5 cut(s)	266, 354, 410, 443, 635
AjnI	CCWGG	2 cut(s)	469, 834
AluBI	AGCT	9 cut(s)	66, 83, 206, 226, 238, 479, 491, 578, 775
AluI	AGCT	9 cut(s)	66, 83, 206, 226, 238, 479, 491, 578, 775
Alw26I	GTCTC	1 cut(s)	748
AlwI	GGATC	2 cut(s)	101, 303
AoxI	GGCC	2 cut(s)	387, 424
ApeKI	GCWGC	3 cut(s)	206, 292, 563
ApoI	RAATTY	2 cut(s)	624, 778
ArsI	GACNNNNNNTTYG	2 cut(s)	30, 62
AspLEI	GCGC	2 cut(s)	190, 604
AspS9I	GGNCC	1 cut(s)	4
AsuHPI	GGTGA	4 cut(s)	650, 694, 730, 805
AvaII	GGWCC	1 cut(s)	4
BaeGI	GKGCMC	1 cut(s)	135
BaeI	ACNNNNGTAYC	2 cut(s)	345, 378
BbvI	GCAGC	3 cut(s)	193, 304, 550
BccI	CCATC	4 cut(s)	443, 503, 728, 818
BceAI	ACGGC	1 cut(s)	411
BciT130I	CCWGG	2 cut(s)	471, 836
BcoDI	GTCTC	1 cut(s)	748
BfmI	CTRYAG	2 cut(s)	207, 290
BfuAI	ACCTGC	2 cut(s)	652, 670
BisI	GCNGC	3 cut(s)	207, 293, 564
BlpI	GCTNAGC	1 cut(s)	84
BlsI	GCNGC	3 cut(s)	208, 294, 565
Bme1390I	CCNGG	2 cut(s)	471, 836
Bme18I	GGWCC	1 cut(s)	4
BmgT120I	GGNCC	1 cut(s)	4
BmiI	GGNNCC	2 cut(s)	6, 514
BmrFI	CCNGG	2 cut(s)	471, 836
BmsI	GCATC	2 cut(s)	464, 781
BplI	GAGNNNNNCTC	2 cut(s)	77, 109
BpmI	CTGGAG	2 cut(s)	492, 507
Bpu1102I	GCTNAGC	1 cut(s)	84
BpuEI	CTTGAG	1 cut(s)	780
BsaAI	YACGTR	1 cut(s)	533
BsaJI	CCNNGG	1 cut(s)	427
Bsc4I	CCNNNNNNNGG	3 cut(s)	13, 319, 422
Bse1I	ACTGG	1 cut(s)	555
BseBI	CCWGG	2 cut(s)	471, 836
BseDI	CCNNGG	1 cut(s)	427
BseGI	GGATG	2 cut(s)	157, 739
BseLI	CCNNNNNNNGG	3 cut(s)	13, 319, 422
BseMII	CTCAG	3 cut(s)	75, 558, 774
BseNI	ACTGG	1 cut(s)	555
BseSI	GKGCMC	1 cut(s)	135
BseXI	GCAGC	3 cut(s)	193, 304, 550
BshFI	GGCC	2 cut(s)	389, 426
BslI	CCNNNNNNNGG	3 cut(s)	13, 319, 422
BsmAI	GTCTC	1 cut(s)	748
BsmI	GAATGC	2 cut(s)	20, 190
BsnI	GGCC	2 cut(s)	389, 426
Bsp1286I	GDGCHC	1 cut(s)	135
Bsp1407I	TGTACA	1 cut(s)	123
Bsp143I	GATC	4 cut(s)	106, 308, 519, 753
Bsp1720I	GCTNAGC	1 cut(s)	84
BspANI	GGCC	2 cut(s)	389, 426
BspCNI	CTCAG	3 cut(s)	76, 559, 775
BspLI	GGNNCC	2 cut(s)	6, 514
BspMAI	CTGCAG	2 cut(s)	211, 294
BspMI	ACCTGC	2 cut(s)	652, 670
BspPI	GGATC	2 cut(s)	101, 303
BspQI	GCTCTTC	1 cut(s)	100
BsrGI	TGTACA	1 cut(s)	123
BsrI	ACTGG	1 cut(s)	555
BssECI	CCNNGG	1 cut(s)	427
BssMI	GATC	4 cut(s)	106, 308, 519, 753
Bst2UI	CCWGG	2 cut(s)	471, 836
Bst4CI	ACNGT	1 cut(s)	248
Bst6I	CTCTTC	4 cut(s)	100, 444, 708, 834
BstAPI	GCANNNNNTGC	1 cut(s)	139
BstAUI	TGTACA	1 cut(s)	123
BstBAI	YACGTR	1 cut(s)	533
BstC8I	GCNNGC	3 cut(s)	236, 387, 501
BstDEI	CTNAG	5 cut(s)	84, 144, 567, 767, 783
BstDSI	CCRYGG	1 cut(s)	427
BstF5I	GGATG	2 cut(s)	157, 739
BstHHI	GCGC	2 cut(s)	190, 604
BstKTI	GATC	4 cut(s)	109, 311, 522, 756
BstMAI	GTCTC	1 cut(s)	748
BstMBI	GATC	4 cut(s)	106, 308, 519, 753
BstMWI	GCNNNNNNNGC	2 cut(s)	139, 806
BstNI	CCWGG	2 cut(s)	471, 836
BstSCI	CCNGG	2 cut(s)	469, 834
BstSFI	CTRYAG	2 cut(s)	207, 290
BstSLI	GKGCMC	1 cut(s)	135
BstV1I	GCAGC	3 cut(s)	193, 304, 550
BstX2I	RGATCY	1 cut(s)	308
BstYI	RGATCY	1 cut(s)	308
BsuRI	GGCC	2 cut(s)	389, 426
BtgI	CCRYGG	1 cut(s)	427
BtsCI	GGATG	2 cut(s)	157, 739
BveI	ACCTGC	2 cut(s)	652, 670
Cac8I	GCNNGC	3 cut(s)	236, 387, 501
CfoI	GCGC	2 cut(s)	190, 604
Cfr13I	GGNCC	1 cut(s)	4
CseI	GACGC	1 cut(s)	26
Csp6I	GTAC	4 cut(s)	124, 435, 494, 571
CviAII	CATG	1 cut(s)	761
CviQI	GTAC	4 cut(s)	124, 435, 494, 571
DdeI	CTNAG	5 cut(s)	84, 144, 567, 767, 783
DpnI	GATC	4 cut(s)	108, 310, 521, 755
DpnII	GATC	4 cut(s)	106, 308, 519, 753
EaeI	YGGCCR	1 cut(s)	424
Eam1104I	CTCTTC	4 cut(s)	100, 444, 708, 834
EarI	CTCTTC	4 cut(s)	100, 444, 708, 834
Eco47I	GGWCC	1 cut(s)	4
Eco57I	CTGAAG	3 cut(s)	164, 423, 749
EcoRII	CCWGG	2 cut(s)	469, 834
FaeI	CATG	1 cut(s)	764
FalI	AAGNNNNNCTT	2 cut(s)	210, 242
FatI	CATG	1 cut(s)	760
FblI	GTMKAC	1 cut(s)	701
Fnu4HI	GCNGC	3 cut(s)	207, 293, 564
FokI	GGATG	2 cut(s)	164, 746
Fsp4HI	GCNGC	3 cut(s)	207, 293, 564
GlaI	GCGC	2 cut(s)	189, 603
GluI	GCNGC	3 cut(s)	207, 293, 564
GsuI	CTGGAG	2 cut(s)	492, 507
HaeIII	GGCC	2 cut(s)	389, 426
HgaI	GACGC	1 cut(s)	26
HhaI	GCGC	2 cut(s)	190, 604
Hin1II	CATG	1 cut(s)	764
Hin6I	GCGC	2 cut(s)	188, 602
HinP1I	GCGC	2 cut(s)	188, 602
HindIII	AAGCTT	1 cut(s)	236
HinfI	GANTC	3 cut(s)	326, 641, 842
HphI	GGTGA	4 cut(s)	650, 694, 730, 805
Hpy166II	GTNNAC	5 cut(s)	124, 176, 244, 527, 702
Hpy188I	TCNGA	5 cut(s)	183, 282, 331, 367, 784
Hpy188III	TCNNGA	2 cut(s)	378, 621
Hpy8I	GTNNAC	5 cut(s)	124, 176, 244, 527, 702
Hpy99I	CGWCG	1 cut(s)	53
HpyAV	CCTTC	5 cut(s)	142, 384, 429, 530, 724
HpyCH4III	ACNGT	1 cut(s)	248
HpyCH4IV	ACGT	2 cut(s)	277, 532
HpyCH4V	TGCA	5 cut(s)	209, 292, 455, 551, 661
HpyF10VI	GCNNNNNNNGC	2 cut(s)	139, 806
HpyF3I	CTNAG	5 cut(s)	84, 144, 567, 767, 783
HpySE526I	ACGT	2 cut(s)	277, 532
Hsp92II	CATG	1 cut(s)	764
HspAI	GCGC	2 cut(s)	188, 602
Kzo9I	GATC	4 cut(s)	106, 308, 519, 753
LguI	GCTCTTC	1 cut(s)	100
LmnI	GCTCC	2 cut(s)	488, 772
Lsp1109I	GCAGC	3 cut(s)	193, 304, 550
LweI	GCATC	2 cut(s)	464, 781
MaeII	ACGT	2 cut(s)	277, 532
MaeIII	GTNAC	2 cut(s)	557, 638
MalI	GATC	4 cut(s)	108, 310, 521, 755
MboI	GATC	4 cut(s)	106, 308, 519, 753
MboII	GAAGA	6 cut(s)	87, 254, 431, 725, 733, 851
MflI	RGATCY	1 cut(s)	308
MhlI	GDGCHC	1 cut(s)	135
MluCI	AATT	5 cut(s)	73, 345, 443, 624, 778
MlyI	GAGTC	2 cut(s)	635, 851
MnlI	CCTC	6 cut(s)	44, 120, 261, 313, 709, 778
MseI	TTAA	3 cut(s)	593, 606, 750
MspA1I	CMGCKG	1 cut(s)	206
MspR9I	CCNGG	2 cut(s)	471, 836
Mva1269I	GAATGC	2 cut(s)	20, 190
MvaI	CCWGG	2 cut(s)	471, 836
MwoI	GCNNNNNNNGC	2 cut(s)	139, 806
NdeII	GATC	4 cut(s)	106, 308, 519, 753
NlaIII	CATG	1 cut(s)	764
NlaIV	GGNNCC	2 cut(s)	6, 514
NmuCI	GTSAC	1 cut(s)	638
PaqCI	CACCTGC	1 cut(s)	670
PciSI	GCTCTTC	1 cut(s)	100
PctI	GAATGC	2 cut(s)	20, 190
PfeI	GAWTC	1 cut(s)	326
PfoI	TCCNGGA	2 cut(s)	469, 834
PkrI	GCNGC	3 cut(s)	208, 294, 565
PleI	GAGTC	2 cut(s)	635, 850
PpsI	GAGTC	2 cut(s)	635, 850
Ppu21I	YACGTR	1 cut(s)	533
Psp6I	CCWGG	2 cut(s)	469, 834
PspGI	CCWGG	2 cut(s)	469, 834
PspN4I	GGNNCC	2 cut(s)	6, 514
PspPI	GGNCC	1 cut(s)	4
PstI	CTGCAG	2 cut(s)	211, 294
PsuI	RGATCY	1 cut(s)	308
PvuII	CAGCTG	1 cut(s)	206
RsaI	GTAC	4 cut(s)	125, 436, 495, 572
RsaNI	GTAC	4 cut(s)	124, 435, 494, 571
SapI	GCTCTTC	1 cut(s)	100
SaqAI	TTAA	3 cut(s)	593, 606, 750
SatI	GCNGC	3 cut(s)	207, 293, 564
Sau3AI	GATC	4 cut(s)	106, 308, 519, 753
Sau96I	GGNCC	1 cut(s)	4
SchI	GAGTC	2 cut(s)	635, 851
ScrFI	CCNGG	2 cut(s)	471, 836
SduI	GDGCHC	1 cut(s)	135
SfaNI	GCATC	2 cut(s)	464, 781
SfcI	CTRYAG	2 cut(s)	207, 290
SinI	GGWCC	1 cut(s)	4
SmlI	CTYRAG	1 cut(s)	795
SmoI	CTYRAG	1 cut(s)	795
Sse9I	AATT	5 cut(s)	73, 345, 443, 624, 778
StyD4I	CCNGG	2 cut(s)	469, 834
TaaI	ACNGT	1 cut(s)	248
TaiI	ACGT	2 cut(s)	280, 535
TasI	AATT	5 cut(s)	73, 345, 443, 624, 778
TatI	WGTACW	3 cut(s)	123, 434, 493
TfiI	GAWTC	1 cut(s)	326
Tru1I	TTAA	3 cut(s)	593, 606, 750
Tru9I	TTAA	3 cut(s)	593, 606, 750
TseFI	GTSAC	1 cut(s)	638
TseI	GCWGC	3 cut(s)	206, 292, 563
Tsp45I	GTSAC	1 cut(s)	638
TspDTI	ATGAA	3 cut(s)	168, 230, 726
VpaK11BI	GGWCC	1 cut(s)	4
XapI	RAATTY	2 cut(s)	624, 778
XcmI	CCANNNNNNNNNTGG	1 cut(s)	842
XmiI	GTMKAC	1 cut(s)	701

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