Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0012394

Physical Location & Seq

Genomic Coordinates Forward (+)

45484194 .. 45486915

Gene Structure 2722 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG244400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1071 bp

ATGAGTTTCTCTAACCTCACCCTGCTCCTCACCCTCGCTCTCCTCATCTCAACCCTCACCGCCCCCTCCTCCGCCGTCACCTTCAACTGCACTACCCCCTCCGCCAATTCCACCTGCCAATCCCTCATCGACTTCGTCCCCATAAACGCCACCACTCTCAACGCCGTCAAGACCCTCTTCAACATCACCCACCTCCGCACCTTACTTGGAGCCAACAACCTCCCCCTCTCGACCCCACCCGAAACAAACGTCACCGCCAAGCAGAAGCTCCGAATCCCCTTCTCCTGCCTCTGCGTCAACGGCTCCGGCGTCTCCAACCGCCGCCCCCGGTACATCGTCAAGGCCGGCGACGGCCTCGACTACATAGCCAGCTTGTTCTCGCGCGTGGTCACGTTCCAGGAGATCGCCCGGGTTAATGGCATACCCGACCCGGATAAGATCGATGTCGGGCAGGACCTGTGGATCCCACTGCCGTGTAGCTGCGACAAAGTGGACGGCGAGGAAGTAGTGCATTACGGACACGTGGTGGACACTGGGAGCACGGTGCAGGTGATCGCCGATGAGTATGGGACCACCCAAGAGACGCTCCTTCGGATCAATGGGATGCCTGACCCCAATGATCTCAAGGCTGGTCAGGTCATTGATGTTCCTCTCAAAGCTTGTGCATCGTCAGTACGAAATGACTCGATAGATTCCGCGTTACTTGTTCCTAATAACACCTATGTCTTCACTGCTTACAATTGTGTGAAGTGCCAATGTAGTACTGTGAACAACTGGACATTACAATGCGAGCCATCAAATCTTAATTCAACTCTCTGGTCGAAATGCCCTTCGATGCAATGCCAAGATTCAAATCAATTATACATTGGCAACACCACATCTTCCTCCTCCTGCAATCAAACAACTTGTGCCTATAGGGGGTACGATAAGCAAACCATTTTTACAGATCTGGTATCTCAGTCCACCTGTTCAACTCCTAGCATCGCTTCAAAGATGGGATTACACAGCTGGAGTTGGAACTTCCTTTTCGTCTCAATTCACTTGGCTCTTCTTTGTCTTCATCTTCTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0005911 GO:0008061 GO:0008144 GO:0009506 GO:0016020 GO:0030054 GO:0031224 GO:0031225 GO:0031226 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0055044 GO:0071944 GO:0097367

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LysM

Protein Analysis

356

Amino Acids

38.71

Weight (kDa)

5.84

Isoelectric Point (pI)

36.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LysM	PF01476	111 - 156	1.9e-08	LysM domain
LysM	PF01476	174 - 217	9.9e-10	LysM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0012394)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G17120
fragaria_vesca	FvH4_2g16381
malus_domestica	MD00G1083800.v1.1
prunus_persica	Prupe.8G176700_v2.0.a1 Prupe.8G176700_v2.0.a1
pyrus_communis	pycom05g12980
rosa_chinensis	RchiOBHm_Chr6g0280171
rosa_laevigata	RLG00000013080
rosa_multiflora	Rmu_co8435311.1_g000001 Rmu_sc0007137.1_g000014
rosa_roxburghii	Rroxscaffold_7G00188340
rosa_rugosa	Rorug06G0130300 Rorug06G0130400
rosa_samantha	Rh6AG240700 Rh6AG241500 Rh6BG244400 Rh6CG246000 Rh6DG237100
rosa_wichuraiana	Rw6G020970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	2 cut(s)	122, 538
Acc36I	ACCTGC	2 cut(s)	122, 538
AccII	CGCG	3 cut(s)	382, 384, 698
AciI	CCGC	8 cut(s)	60, 72, 102, 196, 255, 319, 322, 696
AclWI	GGATC	3 cut(s)	457, 470, 602
AcvI	CACGTG	1 cut(s)	523
AcyI	GRCGYC	1 cut(s)	309
AdeI	CACNNNGTG	1 cut(s)	526
AfaI	GTAC	4 cut(s)	332, 675, 763, 923
AfiI	CCNNNNNNNGG	1 cut(s)	918
AflIII	ACRYGT	1 cut(s)	520
AgsI	TTSAA	6 cut(s)	85, 181, 810, 852, 972, 990
AjnI	CCWGG	1 cut(s)	396
AleI	CACNNNNGTG	1 cut(s)	472
AluBI	AGCT	5 cut(s)	268, 372, 480, 659, 1008
AluI	AGCT	5 cut(s)	268, 372, 480, 659, 1008
Alw21I	GWGCWC	1 cut(s)	542
Alw26I	GTCTC	3 cut(s)	316, 575, 1036
AlwI	GGATC	3 cut(s)	457, 470, 602
AlwNI	CAGNNNCTG	1 cut(s)	457
Ama87I	CYCGRG	1 cut(s)	408
AoxI	GGCC	2 cut(s)	342, 352
ApeKI	GCWGC	1 cut(s)	480
ArsI	GACNNNNNNTTYG	2 cut(s)	234, 266
AspLEI	GCGC	1 cut(s)	384
AspS9I	GGNCC	2 cut(s)	454, 570
AsuC2I	CCSGG	4 cut(s)	328, 409, 410, 431
AsuHPI	GGTGA	7 cut(s)	10, 22, 49, 70, 178, 244, 562
AvaI	CYCGRG	1 cut(s)	408
AvaII	GGWCC	2 cut(s)	454, 570
BamHI	GGATCC	1 cut(s)	462
BbrPI	CACGTG	1 cut(s)	523
BbsI	GAAGAC	2 cut(s)	718, 1049
Bbv12I	GWGCWC	1 cut(s)	542
BbvI	GCAGC	1 cut(s)	467
BccI	CCATC	2 cut(s)	802, 988
BceAI	ACGGC	6 cut(s)	59, 149, 316, 367, 457, 511
BciT130I	CCWGG	1 cut(s)	398
BcnI	CCSGG	4 cut(s)	328, 409, 410, 431
BcoDI	GTCTC	3 cut(s)	316, 575, 1036
BfaI	CTAG	1 cut(s)	978
BfmI	CTRYAG	1 cut(s)	913
BfuAI	ACCTGC	2 cut(s)	122, 538
BglII	AGATCT	1 cut(s)	946
BisI	GCNGC	2 cut(s)	322, 481
BlsI	GCNGC	2 cut(s)	323, 482
BmcAI	AGTACT	1 cut(s)	763
Bme1390I	CCNGG	5 cut(s)	328, 398, 409, 410, 431
Bme18I	GGWCC	2 cut(s)	454, 570
BmeT110I	CYCGRG	1 cut(s)	408
BmgT120I	GGNCC	2 cut(s)	454, 570
BmiI	GGNNCC	4 cut(s)	211, 304, 464, 571
BmrFI	CCNGG	5 cut(s)	328, 398, 409, 410, 431
BmrI	ACTGGG	1 cut(s)	543
BmsI	GCATC	4 cut(s)	594, 674, 825, 990
BmuI	ACTGGG	1 cut(s)	543
BpiI	GAAGAC	2 cut(s)	718, 1049
BpmI	CTGGAG	1 cut(s)	1030
BpuEI	CTTGAG	1 cut(s)	608
BpuMI	CCSGG	4 cut(s)	328, 409, 410, 431
Bsa29I	ATCGAT	1 cut(s)	441
BsaAI	YACGTR	1 cut(s)	523
BsaBI	GATNNNNATC	1 cut(s)	852
BsaHI	GRCGYC	1 cut(s)	309
BsaJI	CCNNGG	2 cut(s)	326, 408
Bsc4I	CCNNNNNNNGG	1 cut(s)	918
Bse118I	RCCGGY	1 cut(s)	344
Bse1I	ACTGG	2 cut(s)	538, 779
Bse3DI	GCAATG	1 cut(s)	845
Bse8I	GATNNNNATC	1 cut(s)	852
BseBI	CCWGG	1 cut(s)	398
BseCI	ATCGAT	1 cut(s)	441
BseDI	CCNNGG	2 cut(s)	326, 408
BseGI	GGATG	1 cut(s)	609
BseJI	GATNNNNATC	1 cut(s)	852
BseLI	CCNNNNNNNGG	1 cut(s)	918
BseMI	GCAATG	1 cut(s)	845
BseMII	CTCAG	1 cut(s)	971
BseNI	ACTGG	2 cut(s)	538, 779
BseRI	GAGGAG	4 cut(s)	17, 32, 58, 877
BseXI	GCAGC	1 cut(s)	467
BsgI	GTGCAG	2 cut(s)	73, 566
Bsh1236I	CGCG	3 cut(s)	382, 384, 698
BshFI	GGCC	2 cut(s)	344, 354
BshVI	ATCGAT	1 cut(s)	441
BsiHKAI	GWGCWC	1 cut(s)	542
BsiHKCI	CYCGRG	1 cut(s)	408
BsiSI	CCGG	5 cut(s)	306, 328, 345, 409, 431
BslFI	GGGAC	2 cut(s)	122, 583
BslI	CCNNNNNNNGG	1 cut(s)	918
BsmAI	GTCTC	3 cut(s)	316, 575, 1036
BsmBI	CGTCTC	3 cut(s)	316, 575, 1036
BsmFI	GGGAC	2 cut(s)	122, 583
BsnI	GGCC	2 cut(s)	344, 354
BsoBI	CYCGRG	1 cut(s)	408
Bsp1286I	GDGCHC	1 cut(s)	542
Bsp143I	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
BspACI	CCGC	8 cut(s)	60, 72, 102, 196, 255, 319, 322, 696
BspANI	GGCC	2 cut(s)	344, 354
BspCNI	CTCAG	1 cut(s)	970
BspDI	ATCGAT	1 cut(s)	441
BspFNI	CGCG	3 cut(s)	382, 384, 698
BspLI	GGNNCC	4 cut(s)	211, 304, 464, 571
BspMI	ACCTGC	2 cut(s)	122, 538
BspPI	GGATC	3 cut(s)	457, 470, 602
BspQI	GCTCTTC	1 cut(s)	1053
BsrDI	GCAATG	1 cut(s)	845
BsrFI	RCCGGY	1 cut(s)	344
BsrI	ACTGG	2 cut(s)	538, 779
BssAI	RCCGGY	1 cut(s)	344
BssECI	CCNNGG	2 cut(s)	326, 408
BssMI	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
BssNI	GRCGYC	1 cut(s)	309
Bst2UI	CCWGG	1 cut(s)	398
Bst4CI	ACNGT	2 cut(s)	544, 766
Bst6I	CTCTTC	2 cut(s)	182, 1053
BstACI	GRCGYC	1 cut(s)	309
BstBAI	YACGTR	1 cut(s)	523
BstC8I	GCNNGC	3 cut(s)	346, 370, 791
BstDEI	CTNAG	1 cut(s)	957
BstF5I	GGATG	1 cut(s)	609
BstFNI	CGCG	3 cut(s)	382, 384, 698
BstHHI	GCGC	1 cut(s)	384
BstKTI	GATC	7 cut(s)	405, 441, 465, 555, 597, 622, 949
BstMAI	GTCTC	3 cut(s)	316, 575, 1036
BstMBI	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
BstMWI	GCNNNNNNNGC	1 cut(s)	300
BstNI	CCWGG	1 cut(s)	398
BstSCI	CCNGG	5 cut(s)	326, 396, 407, 408, 429
BstSFI	CTRYAG	1 cut(s)	913
BstUI	CGCG	3 cut(s)	382, 384, 698
BstV1I	GCAGC	1 cut(s)	467
BstV2I	GAAGAC	2 cut(s)	718, 1049
BstX2I	RGATCY	2 cut(s)	462, 946
BstYI	RGATCY	2 cut(s)	462, 946
Bsu15I	ATCGAT	1 cut(s)	441
BsuRI	GGCC	2 cut(s)	344, 354
BsuTUI	ATCGAT	1 cut(s)	441
BtgZI	GCGATG	1 cut(s)	967
BtsCI	GGATG	1 cut(s)	609
BtsI	GCAGTG	2 cut(s)	467, 729
BtsIMutI	CAGTG	3 cut(s)	467, 531, 729
BveI	ACCTGC	2 cut(s)	122, 538
Cac8I	GCNNGC	3 cut(s)	346, 370, 791
CaiI	CAGNNNCTG	1 cut(s)	457
CfoI	GCGC	1 cut(s)	384
Cfr10I	RCCGGY	1 cut(s)	344
Cfr13I	GGNCC	2 cut(s)	454, 570
Cfr9I	CCCGGG	1 cut(s)	408
ClaI	ATCGAT	1 cut(s)	441
CseI	GACGC	3 cut(s)	283, 298, 592
Csp6I	GTAC	4 cut(s)	331, 674, 762, 922
CviQI	GTAC	4 cut(s)	331, 674, 762, 922
DdeI	CTNAG	1 cut(s)	957
DpnI	GATC	7 cut(s)	404, 440, 464, 554, 596, 621, 948
DpnII	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
DraIII	CACNNNGTG	1 cut(s)	526
Eam1104I	CTCTTC	2 cut(s)	182, 1053
EarI	CTCTTC	2 cut(s)	182, 1053
EciI	GGCGGA	2 cut(s)	61, 91
Eco47I	GGWCC	2 cut(s)	454, 570
Eco72I	CACGTG	1 cut(s)	523
Eco88I	CYCGRG	1 cut(s)	408
EcoO109I	RGGNCCY	1 cut(s)	454
EcoRII	CCWGG	1 cut(s)	396
Esp3I	CGTCTC	3 cut(s)	316, 575, 1036
FaiI	YATR	8 cut(s)	143, 365, 422, 567, 723, 862, 915, 1069
FalI	AAGNNNNNCTT	2 cut(s)	161, 193
FaqI	GGGAC	2 cut(s)	122, 583
Fnu4HI	GCNGC	2 cut(s)	322, 481
FokI	GGATG	1 cut(s)	616
Fsp4HI	GCNGC	2 cut(s)	322, 481
FspBI	CTAG	1 cut(s)	978
GlaI	GCGC	1 cut(s)	383
GluI	GCNGC	2 cut(s)	322, 481
GsuI	CTGGAG	1 cut(s)	1030
HaeIII	GGCC	2 cut(s)	344, 354
HapII	CCGG	5 cut(s)	306, 328, 345, 409, 431
HgaI	GACGC	3 cut(s)	283, 298, 592
HhaI	GCGC	1 cut(s)	384
Hin1I	GRCGYC	1 cut(s)	309
Hin6I	GCGC	1 cut(s)	382
HinP1I	GCGC	1 cut(s)	382
HincII	GTYRAC	1 cut(s)	298
HindII	GTYRAC	1 cut(s)	298
HindIII	AAGCTT	1 cut(s)	657
HinfI	GANTC	4 cut(s)	273, 683, 692, 848
HpaII	CCGG	5 cut(s)	306, 328, 345, 409, 431
HphI	GGTGA	7 cut(s)	10, 22, 49, 70, 178, 244, 562
Hpy166II	GTNNAC	5 cut(s)	298, 493, 529, 769, 963
Hpy188I	TCNGA	2 cut(s)	272, 594
Hpy188III	TCNNGA	2 cut(s)	169, 229
Hpy8I	GTNNAC	5 cut(s)	298, 493, 529, 769, 963
Hpy99I	CGWCG	1 cut(s)	353
HpyAV	CCTTC	4 cut(s)	91, 289, 599, 840
HpyCH4III	ACNGT	2 cut(s)	544, 766
HpyCH4IV	ACGT	3 cut(s)	249, 392, 522
HpyCH4V	TGCA	6 cut(s)	90, 511, 547, 665, 838, 894
HpyF10VI	GCNNNNNNNGC	1 cut(s)	300
HpyF3I	CTNAG	1 cut(s)	957
HpySE526I	ACGT	3 cut(s)	249, 392, 522
Hsp92I	GRCGYC	1 cut(s)	309
HspAI	GCGC	1 cut(s)	382
KroI	GCCGGC	1 cut(s)	344
KroNI	GCCGGC	1 cut(s)	346
Kzo9I	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
LguI	GCTCTTC	1 cut(s)	1053
LmnI	GCTCC	6 cut(s)	30, 209, 273, 308, 537, 591
Lsp1109I	GCAGC	1 cut(s)	467
LweI	GCATC	4 cut(s)	594, 674, 825, 990
MaeI	CTAG	1 cut(s)	978
MaeII	ACGT	3 cut(s)	249, 392, 522
MaeIII	GTNAC	4 cut(s)	76, 250, 388, 699
MalI	GATC	7 cut(s)	404, 440, 464, 554, 596, 621, 948
MboI	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
MboII	GAAGA	6 cut(s)	169, 718, 873, 1040, 1049, 1055
MfeI	CAATTG	1 cut(s)	739
MflI	RGATCY	2 cut(s)	462, 946
MhlI	GDGCHC	1 cut(s)	542
MluCI	AATT	5 cut(s)	106, 739, 805, 857, 1035
MlyI	GAGTC	1 cut(s)	677
MmeI	TCCRAC	2 cut(s)	339, 995
MroNI	GCCGGC	1 cut(s)	344
MseI	TTAA	2 cut(s)	414, 804
MslI	CAYNNNNRTG	2 cut(s)	472, 784
MspA1I	CMGCKG	1 cut(s)	1008
MspI	CCGG	5 cut(s)	306, 328, 345, 409, 431
MspR9I	CCNGG	5 cut(s)	328, 398, 409, 410, 431
MunI	CAATTG	1 cut(s)	739
MvaI	CCWGG	1 cut(s)	398
MvnI	CGCG	3 cut(s)	382, 384, 698
MwoI	GCNNNNNNNGC	1 cut(s)	300
NaeI	GCCGGC	1 cut(s)	346
NciI	CCSGG	4 cut(s)	328, 409, 410, 431
NdeII	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
NgoMIV	GCCGGC	1 cut(s)	344
NlaIV	GGNNCC	4 cut(s)	211, 304, 464, 571
NmuCI	GTSAC	3 cut(s)	76, 250, 388
OliI	CACNNNNGTG	1 cut(s)	472
PaqCI	CACCTGC	2 cut(s)	122, 538
PciSI	GCTCTTC	1 cut(s)	1053
PcsI	WCGNNNNNNNCGW	1 cut(s)	306
PdiI	GCCGGC	1 cut(s)	346
PfeI	GAWTC	3 cut(s)	273, 692, 848
PflFI	GACNNNGTC	1 cut(s)	134
PfoI	TCCNGGA	1 cut(s)	396
PkrI	GCNGC	2 cut(s)	323, 482
PleI	GAGTC	1 cut(s)	677
PmaCI	CACGTG	1 cut(s)	523
PmlI	CACGTG	1 cut(s)	523
PpsI	GAGTC	1 cut(s)	677
Ppu21I	YACGTR	1 cut(s)	523
PpuMI	RGGWCCY	1 cut(s)	454
Psp5II	RGGWCCY	1 cut(s)	454
Psp6I	CCWGG	1 cut(s)	396
PspCI	CACGTG	1 cut(s)	523
PspGI	CCWGG	1 cut(s)	396
PspN4I	GGNNCC	4 cut(s)	211, 304, 464, 571
PspPI	GGNCC	2 cut(s)	454, 570
PspPPI	RGGWCCY	1 cut(s)	454
PstNI	CAGNNNCTG	1 cut(s)	457
PsuI	RGATCY	2 cut(s)	462, 946
PsyI	GACNNNGTC	1 cut(s)	134
PvuII	CAGCTG	1 cut(s)	1008
RsaI	GTAC	4 cut(s)	332, 675, 763, 923
RsaNI	GTAC	4 cut(s)	331, 674, 762, 922
RseI	CAYNNNNRTG	2 cut(s)	472, 784
SapI	GCTCTTC	1 cut(s)	1053
SaqAI	TTAA	2 cut(s)	414, 804
SatI	GCNGC	2 cut(s)	322, 481
Sau3AI	GATC	7 cut(s)	402, 438, 462, 552, 594, 619, 946
Sau96I	GGNCC	2 cut(s)	454, 570
ScaI	AGTACT	1 cut(s)	763
SchI	GAGTC	1 cut(s)	677
ScrFI	CCNGG	5 cut(s)	328, 398, 409, 410, 431
SduI	GDGCHC	1 cut(s)	542
SfaNI	GCATC	4 cut(s)	594, 674, 825, 990
SfcI	CTRYAG	1 cut(s)	913
SinI	GGWCC	2 cut(s)	454, 570
SmaI	CCCGGG	1 cut(s)	410
SmiMI	CAYNNNNRTG	2 cut(s)	472, 784
SmlI	CTYRAG	1 cut(s)	623
SmoI	CTYRAG	1 cut(s)	623
Sse9I	AATT	5 cut(s)	106, 739, 805, 857, 1035
SsiI	CCGC	8 cut(s)	60, 72, 102, 196, 255, 319, 322, 696
SspMI	CTAG	1 cut(s)	978
StyD4I	CCNGG	5 cut(s)	326, 396, 407, 408, 429
TaaI	ACNGT	2 cut(s)	544, 766
TaiI	ACGT	3 cut(s)	252, 395, 525
TaqI	TCGA	7 cut(s)	129, 230, 357, 441, 686, 821, 833
TasI	AATT	5 cut(s)	106, 739, 805, 857, 1035
TatI	WGTACW	1 cut(s)	761
TauI	GCSGC	1 cut(s)	324
TfiI	GAWTC	3 cut(s)	273, 692, 848
Tru1I	TTAA	2 cut(s)	414, 804
Tru9I	TTAA	2 cut(s)	414, 804
TscAI	CASTG	3 cut(s)	474, 538, 736
TseFI	GTSAC	3 cut(s)	76, 250, 388
TseI	GCWGC	1 cut(s)	480
Tsp45I	GTSAC	3 cut(s)	76, 250, 388
TspDTI	ATGAA	1 cut(s)	1049
TspGWI	ACGGA	1 cut(s)	531
TspMI	CCCGGG	1 cut(s)	408
TspRI	CASTG	3 cut(s)	474, 538, 736
Tth111I	GACNNNGTC	1 cut(s)	134
VpaK11BI	GGWCC	2 cut(s)	454, 570
XmaI	CCCGGG	1 cut(s)	408
XspI	CTAG	1 cut(s)	978
ZrmI	AGTACT	1 cut(s)	763

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