Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0012394

Physical Location & Seq

Genomic Coordinates Forward (+)

42697321 .. 42700292

Gene Structure 2972 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG240700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 783 bp

ATGAGTTTCTCTAACCTCACCCTGCTCCTCACCCTCGCCCTCCTCATCTCAACCCTCACCGCCCCCTCCTCCGCCGTCACCTTCAACTGCACTACCCCCTCCGCCAATACCACCTGCCAATCCCTCATCGACTTCGTCCCCACAAACGCCACCACTCTCAACGCCGTCAAGACCCTCTTCAACATCACCCACCTCCGCACCTTACTCGGAGCCAACAACCTCAACCTCTCGACCCGACCCAACGAACCCGTCGCCGCCAAGCAGAAGCTCCGAATCCCCTTCTCCTGCCTCTGCTTCAACGGCTCCGGCGTCTCCAACCACCGCCCCCGGTACATCGTCAAGGCCGGCGACGGCCTCTTCGACATAGCCAGCTTGTTCTCGAGCGTGGTCACGTACCAGGAGATCGCCCGGGTTAATGGCATACCCGACCCGGATAAGATCGATGTCGGGCAGGACCTGTGGATCCCACTGCCGTGTAGCTGCGACAAAGTGGACGGCGAGGAAGTAGTGCATTACGGACACGTGGTGGACCCTGGGAGCACGGTGCAGGGGATCGCCGACGATTATGGGACCACCCAAGAGACGCTTCTTCGGATCAATGGGATGGCCAACTCCAATGAACTCAAGGCTGGTCAGGTCCTTGATGTTCCTCTCAAAGCTTGTGCATCGTCAGTACGAAATGACTCGATAGATTCCCCGTTACTTGTTCCTAATAACACCTATGTCTTCACTGCTTTCAATTGTGTGAAGTGCCAATGTAGTTCTGCGAACAACTGGACGTGA

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

260

Amino Acids

27.93

Weight (kDa)

5.5

Isoelectric Point (pI)

33.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LysM	PF01476	111 - 156	5.1e-10	LysM domain
LysM	PF01476	174 - 217	3.9e-11	LysM 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: 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	1 cut(s)	122
Acc36I	ACCTGC	1 cut(s)	122
AciI	CCGC	6 cut(s)	60, 72, 102, 196, 255, 322
AclWI	GGATC	4 cut(s)	457, 470, 560, 602
AcoI	YGGCCR	1 cut(s)	606
AcvI	CACGTG	1 cut(s)	523
AcyI	GRCGYC	1 cut(s)	309
AdeI	CACNNNGTG	1 cut(s)	526
AfaI	GTAC	3 cut(s)	332, 395, 675
AflIII	ACRYGT	1 cut(s)	520
AgsI	TTSAA	4 cut(s)	85, 181, 298, 739
AjiI	CACGTC	1 cut(s)	780
AjnI	CCWGG	2 cut(s)	396, 532
AjuI	GAANNNNNNNTTGG	2 cut(s)	570, 602
AleI	CACNNNNGTG	1 cut(s)	472
AluBI	AGCT	4 cut(s)	268, 372, 480, 659
AluI	AGCT	4 cut(s)	268, 372, 480, 659
Alw21I	GWGCWC	1 cut(s)	542
Alw26I	GTCTC	2 cut(s)	316, 575
AlwI	GGATC	4 cut(s)	457, 470, 560, 602
AlwNI	CAGNNNCTG	1 cut(s)	457
Ama87I	CYCGRG	2 cut(s)	379, 408
AoxI	GGCC	3 cut(s)	342, 352, 606
ApeKI	GCWGC	1 cut(s)	480
ArsI	GACNNNNNNTTYG	2 cut(s)	341, 373
AspS9I	GGNCC	4 cut(s)	454, 529, 570, 637
AsuC2I	CCSGG	4 cut(s)	328, 409, 410, 431
AsuHPI	GGTGA	5 cut(s)	10, 22, 49, 70, 178
AvaI	CYCGRG	2 cut(s)	379, 408
AvaII	GGWCC	4 cut(s)	454, 529, 570, 637
BalI	TGGCCA	1 cut(s)	608
BamHI	GGATCC	1 cut(s)	462
BbrPI	CACGTG	1 cut(s)	523
BbsI	GAAGAC	1 cut(s)	718
Bbv12I	GWGCWC	1 cut(s)	542
BbvI	GCAGC	1 cut(s)	467
BccI	CCATC	1 cut(s)	598
BceAI	ACGGC	6 cut(s)	59, 149, 316, 367, 457, 511
BcgI	CGANNNNNNTGC	2 cut(s)	187, 221
BciT130I	CCWGG	2 cut(s)	398, 534
BcnI	CCSGG	4 cut(s)	328, 409, 410, 431
BcoDI	GTCTC	2 cut(s)	316, 575
BfuAI	ACCTGC	1 cut(s)	122
BisI	GCNGC	2 cut(s)	255, 481
BlsI	GCNGC	2 cut(s)	256, 482
Bme1390I	CCNGG	6 cut(s)	328, 398, 409, 410, 431, 534
Bme18I	GGWCC	4 cut(s)	454, 529, 570, 637
BmeT110I	CYCGRG	2 cut(s)	379, 408
BmgBI	CACGTC	1 cut(s)	780
BmgT120I	GGNCC	4 cut(s)	454, 529, 570, 637
BmiI	GGNNCC	5 cut(s)	211, 304, 464, 531, 571
BmrFI	CCNGG	6 cut(s)	328, 398, 409, 410, 431, 534
BmsI	GCATC	1 cut(s)	674
BpiI	GAAGAC	1 cut(s)	718
BpuEI	CTTGAG	1 cut(s)	608
BpuMI	CCSGG	4 cut(s)	328, 409, 410, 431
Bsa29I	ATCGAT	1 cut(s)	441
BsaAI	YACGTR	2 cut(s)	393, 523
BsaHI	GRCGYC	1 cut(s)	309
BsaJI	CCNNGG	4 cut(s)	326, 408, 532, 533
Bse118I	RCCGGY	1 cut(s)	344
Bse1I	ACTGG	1 cut(s)	779
BseBI	CCWGG	2 cut(s)	398, 534
BseCI	ATCGAT	1 cut(s)	441
BseDI	CCNNGG	4 cut(s)	326, 408, 532, 533
BseGI	GGATG	1 cut(s)	609
BseNI	ACTGG	1 cut(s)	779
BseRI	GAGGAG	3 cut(s)	17, 32, 58
BseXI	GCAGC	1 cut(s)	467
BsgI	GTGCAG	2 cut(s)	73, 566
BshFI	GGCC	3 cut(s)	344, 354, 608
BshVI	ATCGAT	1 cut(s)	441
BsiHKAI	GWGCWC	1 cut(s)	542
BsiHKCI	CYCGRG	2 cut(s)	379, 408
BsiSI	CCGG	5 cut(s)	306, 328, 345, 409, 431
BslFI	GGGAC	2 cut(s)	122, 583
BsmAI	GTCTC	2 cut(s)	316, 575
BsmBI	CGTCTC	2 cut(s)	316, 575
BsmFI	GGGAC	2 cut(s)	122, 583
BsnI	GGCC	3 cut(s)	344, 354, 608
BsoBI	CYCGRG	2 cut(s)	379, 408
Bsp1286I	GDGCHC	1 cut(s)	542
Bsp143I	GATC	5 cut(s)	402, 438, 462, 552, 594
BspACI	CCGC	6 cut(s)	60, 72, 102, 196, 255, 322
BspANI	GGCC	3 cut(s)	344, 354, 608
BspDI	ATCGAT	1 cut(s)	441
BspLI	GGNNCC	5 cut(s)	211, 304, 464, 531, 571
BspMI	ACCTGC	1 cut(s)	122
BspPI	GGATC	4 cut(s)	457, 470, 560, 602
BsrFI	RCCGGY	1 cut(s)	344
BsrI	ACTGG	1 cut(s)	779
BssAI	RCCGGY	1 cut(s)	344
BssECI	CCNNGG	4 cut(s)	326, 408, 532, 533
BssMI	GATC	5 cut(s)	402, 438, 462, 552, 594
BssNI	GRCGYC	1 cut(s)	309
Bst2UI	CCWGG	2 cut(s)	398, 534
Bst4CI	ACNGT	1 cut(s)	544
Bst6I	CTCTTC	2 cut(s)	182, 362
BstACI	GRCGYC	1 cut(s)	309
BstBAI	YACGTR	2 cut(s)	393, 523
BstC8I	GCNNGC	2 cut(s)	346, 370
BstF5I	GGATG	1 cut(s)	609
BstKTI	GATC	5 cut(s)	405, 441, 465, 555, 597
BstMAI	GTCTC	2 cut(s)	316, 575
BstMBI	GATC	5 cut(s)	402, 438, 462, 552, 594
BstMWI	GCNNNNNNNGC	1 cut(s)	300
BstNI	CCWGG	2 cut(s)	398, 534
BstSCI	CCNGG	6 cut(s)	326, 396, 407, 408, 429, 532
BstV1I	GCAGC	1 cut(s)	467
BstV2I	GAAGAC	1 cut(s)	718
BstX2I	RGATCY	1 cut(s)	462
BstYI	RGATCY	1 cut(s)	462
Bsu15I	ATCGAT	1 cut(s)	441
BsuRI	GGCC	3 cut(s)	344, 354, 608
BsuTUI	ATCGAT	1 cut(s)	441
BtrI	CACGTC	1 cut(s)	780
BtsCI	GGATG	1 cut(s)	609
BtsI	GCAGTG	2 cut(s)	467, 729
BtsIMutI	CAGTG	2 cut(s)	467, 729
BveI	ACCTGC	1 cut(s)	122
Cac8I	GCNNGC	2 cut(s)	346, 370
CaiI	CAGNNNCTG	1 cut(s)	457
Cfr10I	RCCGGY	1 cut(s)	344
Cfr13I	GGNCC	4 cut(s)	454, 529, 570, 637
Cfr9I	CCCGGG	1 cut(s)	408
ClaI	ATCGAT	1 cut(s)	441
CseI	GACGC	2 cut(s)	298, 592
Csp6I	GTAC	3 cut(s)	331, 394, 674
CviQI	GTAC	3 cut(s)	331, 394, 674
DpnI	GATC	5 cut(s)	404, 440, 464, 554, 596
DpnII	GATC	5 cut(s)	402, 438, 462, 552, 594
DraIII	CACNNNGTG	1 cut(s)	526
EaeI	YGGCCR	1 cut(s)	606
Eam1104I	CTCTTC	2 cut(s)	182, 362
EarI	CTCTTC	2 cut(s)	182, 362
EciI	GGCGGA	2 cut(s)	61, 91
Eco47I	GGWCC	4 cut(s)	454, 529, 570, 637
Eco72I	CACGTG	1 cut(s)	523
Eco88I	CYCGRG	2 cut(s)	379, 408
EcoO109I	RGGNCCY	2 cut(s)	454, 637
EcoRII	CCWGG	2 cut(s)	396, 532
Esp3I	CGTCTC	2 cut(s)	316, 575
FaiI	YATR	4 cut(s)	365, 422, 567, 723
FalI	AAGNNNNNCTT	4 cut(s)	161, 193, 570, 602
FaqI	GGGAC	2 cut(s)	122, 583
Fnu4HI	GCNGC	2 cut(s)	255, 481
FokI	GGATG	1 cut(s)	616
Fsp4HI	GCNGC	2 cut(s)	255, 481
GluI	GCNGC	2 cut(s)	255, 481
HaeIII	GGCC	3 cut(s)	344, 354, 608
HapII	CCGG	5 cut(s)	306, 328, 345, 409, 431
HgaI	GACGC	2 cut(s)	298, 592
Hin1I	GRCGYC	1 cut(s)	309
HindIII	AAGCTT	1 cut(s)	657
HinfI	GANTC	3 cut(s)	273, 683, 692
HpaII	CCGG	5 cut(s)	306, 328, 345, 409, 431
HphI	GGTGA	5 cut(s)	10, 22, 49, 70, 178
Hpy166II	GTNNAC	2 cut(s)	493, 529
Hpy188I	TCNGA	3 cut(s)	209, 272, 594
Hpy188III	TCNNGA	3 cut(s)	169, 229, 379
Hpy8I	GTNNAC	2 cut(s)	493, 529
Hpy99I	CGWCG	3 cut(s)	254, 353, 563
HpyAV	CCTTC	2 cut(s)	91, 289
HpyCH4III	ACNGT	1 cut(s)	544
HpyCH4IV	ACGT	3 cut(s)	392, 522, 779
HpyCH4V	TGCA	4 cut(s)	90, 511, 547, 665
HpyF10VI	GCNNNNNNNGC	1 cut(s)	300
HpySE526I	ACGT	3 cut(s)	392, 522, 779
Hsp92I	GRCGYC	1 cut(s)	309
KroI	GCCGGC	1 cut(s)	344
KroNI	GCCGGC	1 cut(s)	346
Kzo9I	GATC	5 cut(s)	402, 438, 462, 552, 594
LmnI	GCTCC	5 cut(s)	30, 209, 273, 308, 537
Lsp1109I	GCAGC	1 cut(s)	467
LweI	GCATC	1 cut(s)	674
MaeII	ACGT	3 cut(s)	392, 522, 779
MaeIII	GTNAC	3 cut(s)	76, 388, 699
MalI	GATC	5 cut(s)	404, 440, 464, 554, 596
MboI	GATC	5 cut(s)	402, 438, 462, 552, 594
MboII	GAAGA	4 cut(s)	169, 349, 581, 718
MfeI	CAATTG	1 cut(s)	739
MflI	RGATCY	1 cut(s)	462
MhlI	GDGCHC	1 cut(s)	542
MlsI	TGGCCA	1 cut(s)	608
MluCI	AATT	1 cut(s)	739
MluNI	TGGCCA	1 cut(s)	608
MlyI	GAGTC	1 cut(s)	677
MmeI	TCCRAC	1 cut(s)	339
Mox20I	TGGCCA	1 cut(s)	608
MroNI	GCCGGC	1 cut(s)	344
MscI	TGGCCA	1 cut(s)	608
MseI	TTAA	1 cut(s)	414
MslI	CAYNNNNRTG	1 cut(s)	472
Msp20I	TGGCCA	1 cut(s)	608
MspI	CCGG	5 cut(s)	306, 328, 345, 409, 431
MspR9I	CCNGG	6 cut(s)	328, 398, 409, 410, 431, 534
MunI	CAATTG	1 cut(s)	739
MvaI	CCWGG	2 cut(s)	398, 534
MwoI	GCNNNNNNNGC	1 cut(s)	300
NaeI	GCCGGC	1 cut(s)	346
NciI	CCSGG	4 cut(s)	328, 409, 410, 431
NdeII	GATC	5 cut(s)	402, 438, 462, 552, 594
NgoMIV	GCCGGC	1 cut(s)	344
NlaIV	GGNNCC	5 cut(s)	211, 304, 464, 531, 571
NmuCI	GTSAC	2 cut(s)	76, 388
OliI	CACNNNNGTG	1 cut(s)	472
PaeR7I	CTCGAG	1 cut(s)	379
PaqCI	CACCTGC	1 cut(s)	122
PasI	CCCWGGG	1 cut(s)	533
PcsI	WCGNNNNNNNCGW	2 cut(s)	306, 357
PdiI	GCCGGC	1 cut(s)	346
PfeI	GAWTC	2 cut(s)	273, 692
PflFI	GACNNNGTC	1 cut(s)	134
PkrI	GCNGC	2 cut(s)	256, 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	2 cut(s)	393, 523
PpuMI	RGGWCCY	2 cut(s)	454, 637
Psp5II	RGGWCCY	2 cut(s)	454, 637
Psp6I	CCWGG	2 cut(s)	396, 532
PspCI	CACGTG	1 cut(s)	523
PspGI	CCWGG	2 cut(s)	396, 532
PspN4I	GGNNCC	5 cut(s)	211, 304, 464, 531, 571
PspPI	GGNCC	4 cut(s)	454, 529, 570, 637
PspPPI	RGGWCCY	2 cut(s)	454, 637
PstNI	CAGNNNCTG	1 cut(s)	457
PsuI	RGATCY	1 cut(s)	462
PsyI	GACNNNGTC	1 cut(s)	134
RsaI	GTAC	3 cut(s)	332, 395, 675
RsaNI	GTAC	3 cut(s)	331, 394, 674
RseI	CAYNNNNRTG	1 cut(s)	472
SaqAI	TTAA	1 cut(s)	414
SatI	GCNGC	2 cut(s)	255, 481
Sau3AI	GATC	5 cut(s)	402, 438, 462, 552, 594
Sau96I	GGNCC	4 cut(s)	454, 529, 570, 637
SchI	GAGTC	1 cut(s)	677
ScrFI	CCNGG	6 cut(s)	328, 398, 409, 410, 431, 534
SduI	GDGCHC	1 cut(s)	542
SfaNI	GCATC	1 cut(s)	674
Sfr274I	CTCGAG	1 cut(s)	379
SinI	GGWCC	4 cut(s)	454, 529, 570, 637
SlaI	CTCGAG	1 cut(s)	379
SmaI	CCCGGG	1 cut(s)	410
SmiMI	CAYNNNNRTG	1 cut(s)	472
SmlI	CTYRAG	2 cut(s)	379, 623
SmoI	CTYRAG	2 cut(s)	379, 623
Sse9I	AATT	1 cut(s)	739
SsiI	CCGC	6 cut(s)	60, 72, 102, 196, 255, 322
StyD4I	CCNGG	6 cut(s)	326, 396, 407, 408, 429, 532
TaaI	ACNGT	1 cut(s)	544
TaiI	ACGT	3 cut(s)	395, 525, 782
TaqI	TCGA	6 cut(s)	129, 230, 360, 380, 441, 686
TasI	AATT	1 cut(s)	739
TauI	GCSGC	1 cut(s)	257
TfiI	GAWTC	2 cut(s)	273, 692
Tru1I	TTAA	1 cut(s)	414
Tru9I	TTAA	1 cut(s)	414
TscAI	CASTG	2 cut(s)	474, 736
TseFI	GTSAC	2 cut(s)	76, 388
TseI	GCWGC	1 cut(s)	480
Tsp45I	GTSAC	2 cut(s)	76, 388
TspDTI	ATGAA	1 cut(s)	633
TspGWI	ACGGA	1 cut(s)	531
TspMI	CCCGGG	1 cut(s)	408
TspRI	CASTG	2 cut(s)	474, 736
Tth111I	GACNNNGTC	1 cut(s)	134
VpaK11BI	GGWCC	4 cut(s)	454, 529, 570, 637
XhoI	CTCGAG	1 cut(s)	379
XmaI	CCCGGG	1 cut(s)	408

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