Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0012394

Physical Location & Seq

Genomic Coordinates Forward (+)

41408875 .. 41411850

Gene Structure 2976 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG246000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGAGTTTCTCTAACCTCACCCTGCTCCTCACCCTCACCCTCCTCATCTCAACCCTCACCGCCCCCTCCTCCGCCGCCACCTTCAACTGCACTACCCCCTCCGCCAATTCCACCACCTGCCAATCCCTCATCGACTTCGTCCCCACAAACGCCACCACTCTCAACGCCGTCAAGACCCTCTTCAACATCACCCACCTCCGCACCTTACTTGGAGCCAACAACCTCCCCCTCTCGACCCGACCCGAAAAACCCGTCACCGCCAAACAGAAGCTCCGAATCCCCTTCTCCTGCCTCTGCTTCAACGGCTCCGGCGTCTCCAACCGCCGCCCCCGGTATATCGTCAAGGCCGGCGACGGCCTCGACTACATAGCCAGCTTGTTCTCGCGCCTGGTCACGTACCAGGAGATCGCCCGGGTCAATGGCATACCCGACCCGGATAAGATCGAGGTCGGGCAGGAGCTGTGGATCCCACTGCCGTGTAGCTGCGACAAAGTGGACGGCGAGGAAGTAGTGCATTACGGACACGTGGTGGACACTGGGAGCACGGTGCAGGGGATCGCCGAGGAGTATGGGACCACCCAAGAGACGCTCCTTCGGATCAATGGGATGCCTGACCCCAATGAACTCGAGGCTGGTCAGGTCCTTGATGTTCCTCTCAAAGCTTGTGCATCGTCAGTACGAAATGACTCGATAGATTCCCCGTTACTTGTTCCTAATAACACCTATGTCTTCACTGCTTACAGTTGTGTGAAGTGCCAATGTAGTTCTGCGAACGACTGGACGTGA

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

261

Amino Acids

28.25

Weight (kDa)

5.22

Isoelectric Point (pI)

40.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LysM	PF01476	112 - 157	7.9e-11	LysM domain
LysM	PF01476	175 - 218	1.1e-10	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)	125
Acc36I	ACCTGC	1 cut(s)	125
AccII	CGCG	1 cut(s)	385
AciI	CCGC	8 cut(s)	60, 72, 75, 102, 199, 258, 322, 325
AclWI	GGATC	4 cut(s)	460, 473, 563, 605
AcvI	CACGTG	1 cut(s)	526
AcyI	GRCGYC	1 cut(s)	312
AdeI	CACNNNGTG	1 cut(s)	529
AfaI	GTAC	2 cut(s)	398, 678
AflIII	ACRYGT	1 cut(s)	523
AgsI	TTSAA	3 cut(s)	85, 184, 301
AjiI	CACGTC	1 cut(s)	783
AjnI	CCWGG	2 cut(s)	387, 399
AleI	CACNNNNGTG	1 cut(s)	475
AluBI	AGCT	5 cut(s)	271, 375, 460, 483, 662
AluI	AGCT	5 cut(s)	271, 375, 460, 483, 662
Alw21I	GWGCWC	1 cut(s)	545
Alw26I	GTCTC	2 cut(s)	319, 578
AlwI	GGATC	4 cut(s)	460, 473, 563, 605
AlwNI	CAGNNNCTG	1 cut(s)	460
Ama87I	CYCGRG	2 cut(s)	411, 626
AoxI	GGCC	2 cut(s)	345, 355
ApeKI	GCWGC	1 cut(s)	483
ArsI	GACNNNNNNTTYG	2 cut(s)	237, 269
AspLEI	GCGC	1 cut(s)	387
AspS9I	GGNCC	2 cut(s)	573, 640
AsuC2I	CCSGG	4 cut(s)	331, 412, 413, 434
AsuHPI	GGTGA	6 cut(s)	10, 22, 28, 49, 181, 247
AvaI	CYCGRG	2 cut(s)	411, 626
AvaII	GGWCC	2 cut(s)	573, 640
BamHI	GGATCC	1 cut(s)	465
BbrPI	CACGTG	1 cut(s)	526
BbsI	GAAGAC	1 cut(s)	721
Bbv12I	GWGCWC	1 cut(s)	545
BbvI	GCAGC	1 cut(s)	470
BceAI	ACGGC	5 cut(s)	152, 319, 370, 460, 514
BciT130I	CCWGG	2 cut(s)	389, 401
BcnI	CCSGG	4 cut(s)	331, 412, 413, 434
BcoDI	GTCTC	2 cut(s)	319, 578
BfuAI	ACCTGC	1 cut(s)	125
BisI	GCNGC	3 cut(s)	75, 325, 484
BlsI	GCNGC	3 cut(s)	76, 326, 485
Bme1390I	CCNGG	6 cut(s)	331, 389, 401, 412, 413, 434
Bme18I	GGWCC	2 cut(s)	573, 640
BmeT110I	CYCGRG	2 cut(s)	411, 626
BmgBI	CACGTC	1 cut(s)	783
BmgT120I	GGNCC	2 cut(s)	573, 640
BmiI	GGNNCC	4 cut(s)	214, 307, 467, 574
BmrFI	CCNGG	6 cut(s)	331, 389, 401, 412, 413, 434
BmrI	ACTGGG	1 cut(s)	546
BmsI	GCATC	2 cut(s)	597, 677
BmuI	ACTGGG	1 cut(s)	546
BpiI	GAAGAC	1 cut(s)	721
BpuMI	CCSGG	4 cut(s)	331, 412, 413, 434
BsaAI	YACGTR	2 cut(s)	396, 526
BsaHI	GRCGYC	1 cut(s)	312
BsaJI	CCNNGG	3 cut(s)	329, 411, 561
BsaXI	ACNNNNNCTCC	2 cut(s)	255, 285
Bse118I	RCCGGY	1 cut(s)	347
Bse1I	ACTGG	2 cut(s)	541, 782
BseBI	CCWGG	2 cut(s)	389, 401
BseDI	CCNNGG	3 cut(s)	329, 411, 561
BseGI	GGATG	1 cut(s)	612
BseNI	ACTGG	2 cut(s)	541, 782
BseRI	GAGGAG	4 cut(s)	17, 32, 58, 578
BseXI	GCAGC	1 cut(s)	470
BsgI	GTGCAG	2 cut(s)	73, 569
Bsh1236I	CGCG	1 cut(s)	385
BshFI	GGCC	2 cut(s)	347, 357
BsiHKAI	GWGCWC	1 cut(s)	545
BsiHKCI	CYCGRG	2 cut(s)	411, 626
BsiSI	CCGG	5 cut(s)	309, 331, 348, 412, 434
BslFI	GGGAC	2 cut(s)	125, 586
BsmAI	GTCTC	2 cut(s)	319, 578
BsmBI	CGTCTC	2 cut(s)	319, 578
BsmFI	GGGAC	2 cut(s)	125, 586
BsnI	GGCC	2 cut(s)	347, 357
BsoBI	CYCGRG	2 cut(s)	411, 626
Bsp1286I	GDGCHC	1 cut(s)	545
Bsp143I	GATC	5 cut(s)	405, 441, 465, 555, 597
BspACI	CCGC	8 cut(s)	60, 72, 75, 102, 199, 258, 322, 325
BspANI	GGCC	2 cut(s)	347, 357
BspFNI	CGCG	1 cut(s)	385
BspLI	GGNNCC	4 cut(s)	214, 307, 467, 574
BspMI	ACCTGC	1 cut(s)	125
BspPI	GGATC	4 cut(s)	460, 473, 563, 605
BsrFI	RCCGGY	1 cut(s)	347
BsrI	ACTGG	2 cut(s)	541, 782
BssAI	RCCGGY	1 cut(s)	347
BssECI	CCNNGG	3 cut(s)	329, 411, 561
BssMI	GATC	5 cut(s)	405, 441, 465, 555, 597
BssNI	GRCGYC	1 cut(s)	312
Bst2UI	CCWGG	2 cut(s)	389, 401
Bst4CI	ACNGT	2 cut(s)	547, 743
Bst6I	CTCTTC	1 cut(s)	185
BstACI	GRCGYC	1 cut(s)	312
BstBAI	YACGTR	2 cut(s)	396, 526
BstC8I	GCNNGC	2 cut(s)	349, 373
BstF5I	GGATG	1 cut(s)	612
BstFNI	CGCG	1 cut(s)	385
BstHHI	GCGC	1 cut(s)	387
BstKTI	GATC	5 cut(s)	408, 444, 468, 558, 600
BstMAI	GTCTC	2 cut(s)	319, 578
BstMBI	GATC	5 cut(s)	405, 441, 465, 555, 597
BstMWI	GCNNNNNNNGC	1 cut(s)	303
BstNI	CCWGG	2 cut(s)	389, 401
BstSCI	CCNGG	6 cut(s)	329, 387, 399, 410, 411, 432
BstUI	CGCG	1 cut(s)	385
BstV1I	GCAGC	1 cut(s)	470
BstV2I	GAAGAC	1 cut(s)	721
BstX2I	RGATCY	1 cut(s)	465
BstYI	RGATCY	1 cut(s)	465
BsuRI	GGCC	2 cut(s)	347, 357
BtrI	CACGTC	1 cut(s)	783
BtsCI	GGATG	1 cut(s)	612
BtsI	GCAGTG	2 cut(s)	470, 732
BtsIMutI	CAGTG	3 cut(s)	470, 534, 732
BveI	ACCTGC	1 cut(s)	125
Cac8I	GCNNGC	2 cut(s)	349, 373
CaiI	CAGNNNCTG	1 cut(s)	460
CfoI	GCGC	1 cut(s)	387
Cfr10I	RCCGGY	1 cut(s)	347
Cfr13I	GGNCC	2 cut(s)	573, 640
Cfr9I	CCCGGG	1 cut(s)	411
CseI	GACGC	2 cut(s)	301, 595
Csp6I	GTAC	2 cut(s)	397, 677
CviQI	GTAC	2 cut(s)	397, 677
DpnI	GATC	5 cut(s)	407, 443, 467, 557, 599
DpnII	GATC	5 cut(s)	405, 441, 465, 555, 597
DraIII	CACNNNGTG	1 cut(s)	529
Eam1104I	CTCTTC	1 cut(s)	185
EarI	CTCTTC	1 cut(s)	185
EciI	GGCGGA	2 cut(s)	61, 91
Eco47I	GGWCC	2 cut(s)	573, 640
Eco72I	CACGTG	1 cut(s)	526
Eco88I	CYCGRG	2 cut(s)	411, 626
EcoO109I	RGGNCCY	1 cut(s)	640
EcoRII	CCWGG	2 cut(s)	387, 399
Esp3I	CGTCTC	2 cut(s)	319, 578
FaiI	YATR	5 cut(s)	336, 368, 425, 570, 726
FalI	AAGNNNNNCTT	2 cut(s)	164, 196
FaqI	GGGAC	2 cut(s)	125, 586
Fnu4HI	GCNGC	3 cut(s)	75, 325, 484
FokI	GGATG	1 cut(s)	619
Fsp4HI	GCNGC	3 cut(s)	75, 325, 484
GlaI	GCGC	1 cut(s)	386
GluI	GCNGC	3 cut(s)	75, 325, 484
HaeIII	GGCC	2 cut(s)	347, 357
HapII	CCGG	5 cut(s)	309, 331, 348, 412, 434
HgaI	GACGC	2 cut(s)	301, 595
HhaI	GCGC	1 cut(s)	387
Hin1I	GRCGYC	1 cut(s)	312
Hin6I	GCGC	1 cut(s)	385
HinP1I	GCGC	1 cut(s)	385
HindIII	AAGCTT	1 cut(s)	660
HinfI	GANTC	3 cut(s)	276, 686, 695
HpaII	CCGG	5 cut(s)	309, 331, 348, 412, 434
HphI	GGTGA	6 cut(s)	10, 22, 28, 49, 181, 247
Hpy166II	GTNNAC	2 cut(s)	496, 532
Hpy188I	TCNGA	2 cut(s)	275, 597
Hpy188III	TCNNGA	2 cut(s)	172, 232
Hpy8I	GTNNAC	2 cut(s)	496, 532
Hpy99I	CGWCG	1 cut(s)	356
HpyAV	CCTTC	3 cut(s)	91, 292, 602
HpyCH4III	ACNGT	2 cut(s)	547, 743
HpyCH4IV	ACGT	3 cut(s)	395, 525, 782
HpyCH4V	TGCA	4 cut(s)	90, 514, 550, 668
HpyF10VI	GCNNNNNNNGC	1 cut(s)	303
HpySE526I	ACGT	3 cut(s)	395, 525, 782
Hsp92I	GRCGYC	1 cut(s)	312
HspAI	GCGC	1 cut(s)	385
KroI	GCCGGC	1 cut(s)	347
KroNI	GCCGGC	1 cut(s)	349
Kzo9I	GATC	5 cut(s)	405, 441, 465, 555, 597
LmnI	GCTCC	7 cut(s)	30, 212, 276, 311, 457, 540, 594
Lsp1109I	GCAGC	1 cut(s)	470
LweI	GCATC	2 cut(s)	597, 677
MaeII	ACGT	3 cut(s)	395, 525, 782
MaeIII	GTNAC	3 cut(s)	253, 391, 702
MalI	GATC	5 cut(s)	407, 443, 467, 557, 599
MboI	GATC	5 cut(s)	405, 441, 465, 555, 597
MboII	GAAGA	2 cut(s)	172, 721
MflI	RGATCY	1 cut(s)	465
MhlI	GDGCHC	1 cut(s)	545
MluCI	AATT	1 cut(s)	106
MlyI	GAGTC	1 cut(s)	680
MmeI	TCCRAC	1 cut(s)	342
MroNI	GCCGGC	1 cut(s)	347
MslI	CAYNNNNRTG	1 cut(s)	475
MspI	CCGG	5 cut(s)	309, 331, 348, 412, 434
MspR9I	CCNGG	6 cut(s)	331, 389, 401, 412, 413, 434
MvaI	CCWGG	2 cut(s)	389, 401
MvnI	CGCG	1 cut(s)	385
MwoI	GCNNNNNNNGC	1 cut(s)	303
NaeI	GCCGGC	1 cut(s)	349
NciI	CCSGG	4 cut(s)	331, 412, 413, 434
NdeII	GATC	5 cut(s)	405, 441, 465, 555, 597
NgoMIV	GCCGGC	1 cut(s)	347
NlaIV	GGNNCC	4 cut(s)	214, 307, 467, 574
NmeAIII	GCCGAG	1 cut(s)	586
NmuCI	GTSAC	2 cut(s)	253, 391
OliI	CACNNNNGTG	1 cut(s)	475
PaeR7I	CTCGAG	1 cut(s)	626
PaqCI	CACCTGC	1 cut(s)	125
PcsI	WCGNNNNNNNCGW	1 cut(s)	309
PdiI	GCCGGC	1 cut(s)	349
PfeI	GAWTC	2 cut(s)	276, 695
PflFI	GACNNNGTC	1 cut(s)	137
PkrI	GCNGC	3 cut(s)	76, 326, 485
PleI	GAGTC	1 cut(s)	680
PmaCI	CACGTG	1 cut(s)	526
PmlI	CACGTG	1 cut(s)	526
PpsI	GAGTC	1 cut(s)	680
Ppu21I	YACGTR	2 cut(s)	396, 526
PpuMI	RGGWCCY	1 cut(s)	640
Psp5II	RGGWCCY	1 cut(s)	640
Psp6I	CCWGG	2 cut(s)	387, 399
PspCI	CACGTG	1 cut(s)	526
PspGI	CCWGG	2 cut(s)	387, 399
PspN4I	GGNNCC	4 cut(s)	214, 307, 467, 574
PspPI	GGNCC	2 cut(s)	573, 640
PspPPI	RGGWCCY	1 cut(s)	640
PspXI	VCTCGAGB	1 cut(s)	626
PstNI	CAGNNNCTG	1 cut(s)	460
PsuI	RGATCY	1 cut(s)	465
PsyI	GACNNNGTC	1 cut(s)	137
RsaI	GTAC	2 cut(s)	398, 678
RsaNI	GTAC	2 cut(s)	397, 677
RseI	CAYNNNNRTG	1 cut(s)	475
SatI	GCNGC	3 cut(s)	75, 325, 484
Sau3AI	GATC	5 cut(s)	405, 441, 465, 555, 597
Sau96I	GGNCC	2 cut(s)	573, 640
SchI	GAGTC	1 cut(s)	680
ScrFI	CCNGG	6 cut(s)	331, 389, 401, 412, 413, 434
SduI	GDGCHC	1 cut(s)	545
SfaNI	GCATC	2 cut(s)	597, 677
Sfr274I	CTCGAG	1 cut(s)	626
SinI	GGWCC	2 cut(s)	573, 640
SlaI	CTCGAG	1 cut(s)	626
SmaI	CCCGGG	1 cut(s)	413
SmiMI	CAYNNNNRTG	1 cut(s)	475
SmlI	CTYRAG	1 cut(s)	626
SmoI	CTYRAG	1 cut(s)	626
Sse9I	AATT	1 cut(s)	106
SsiI	CCGC	8 cut(s)	60, 72, 75, 102, 199, 258, 322, 325
StyD4I	CCNGG	6 cut(s)	329, 387, 399, 410, 411, 432
TaaI	ACNGT	2 cut(s)	547, 743
TaiI	ACGT	3 cut(s)	398, 528, 785
TaqI	TCGA	6 cut(s)	132, 233, 360, 444, 627, 689
TasI	AATT	1 cut(s)	106
TauI	GCSGC	2 cut(s)	77, 327
TfiI	GAWTC	2 cut(s)	276, 695
TscAI	CASTG	3 cut(s)	477, 541, 739
TseFI	GTSAC	2 cut(s)	253, 391
TseI	GCWGC	1 cut(s)	483
Tsp45I	GTSAC	2 cut(s)	253, 391
TspDTI	ATGAA	1 cut(s)	636
TspGWI	ACGGA	1 cut(s)	534
TspMI	CCCGGG	1 cut(s)	411
TspRI	CASTG	3 cut(s)	477, 541, 739
Tth111I	GACNNNGTC	1 cut(s)	137
VpaK11BI	GGWCC	2 cut(s)	573, 640
XhoI	CTCGAG	1 cut(s)	626
XmaI	CCCGGG	1 cut(s)	411

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