Rh5DG046200

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000334
Physical Location & Seq
Forward (+)
3814714 .. 3819533
4820 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG046200.1

Sequence Viewer

Length: 597 bp
ATGGCTAAAGCTAGCAATGCATCCATCGTTATGAACTTGACAGTTCTGATGCTGTCTTTTCTGCTTGTGGTCTCTTTCGCTGAAAGCCGATTTCTTGAAAAAGGGATCCTGAAGCCTGCCACCCTGAAATGTGATTCAGTGTACGACAAAAATGGAGACACCTGTTTTGAAATTGCTGAGGCTTTCAACTTGCCTACTAAGGTCTTCAATTCCATCAATCCCAATCTCAATTGCACAGCCCTTTTCGTAGGCCAATGGATTAGGAGAATGGCTAAAGCTGATACCAATGCATCCATGGTTATGAACTTGACGGTTCTGATGGTGTCTTTTCTCCTTCTAGTCTCTTTGGCTGAAAGCCAATTTTTCGGAAATGGGATCTTGACACCTCCCAGTCCCATAGCTCCGCCTCCCAGCTCTCCCTCCCCTCCCACCCTAGAATGTGATTCAGTGTATGGTGTAATAAGTGGAGACACATGCTTTGAAGTGGCTAAGACGTTCAAACTCACTACTGCATTGTTTGAAACACTCAACCCCAATCTCAATTGCTCAGCTCTCTTCATAGGTCAATGGCTTTGCCTTGATGGAAAATTAACTTAA
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
LysM

Protein Analysis

198

Amino Acids

21.45

Weight (kDa)

5.11

Isoelectric Point (pI)

35.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 50 - 85 1.2e-06 LysM domain
LysM PF01476 152 - 193 2e-07 LysM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000334)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G28240
fragaria_vesca FvH4_3g03881 FvH4_3g03882 FvH4_3g39481 FvH4_3g39491 FvH4_4g25661 FvH4_5g02870 FvH4_5g34303 FvH4_5g34304 FvH4_6g24132 FvH4_6g44490 FvH4_6g44501 FvH4_6g44545 FvH4_6g44841
malus_domestica MD09G1090300.v1.1 MD09G1096600.v1.1 MD17G1084800.v1.1 MD17G1084900.v1.1
prunus_persica Prupe.1G064500_v2.0.a1 Prupe.3G230300_v2.0.a1 Prupe.3G230400_v2.0.a1 Prupe.3G230500_v2.0.a1 Prupe.3G230600_v2.0.a1 Prupe.3G230700_v2.0.a1 Prupe.3G230900_v2.0.a1 Prupe.4G037900_v2.0.a1
pyrus_communis pycom09g02100 pycom17g08220
rosa_chinensis RchiOBHm_Chr2g0161551 RchiOBHm_Chr2g0161661 RchiOBHm_Chr2g0161721 RchiOBHm_Chr2g0161751 RchiOBHm_Chr5g0006151 RchiOBHm_Chr5g0006161 RchiOBHm_Chr5g0071201 RchiOBHm_Chr7g0234891
rosa_laevigata RLG00000003965 RLG00000021291 RLG00000021295 RLG00000023183 RLG00000031379 RLG00000032398 RLG00000036195
rosa_multiflora Rmu_sc0000039.1_g000008 Rmu_sc0000637.1_g000006 Rmu_sc0007000.1_g000002 Rmu_sc0009339.1_g000009 Rmu_sc0027757.1_g000001 Rmu_sc0042097.1_g000001
rosa_roxburghii Rroxscaffold_1G00009880 Rroxscaffold_1G00069840 Rroxscaffold_1G00069850 Rroxscaffold_2G00088370 Rroxscaffold_2G00088630 Rroxscaffold_2G00088650 Rroxscaffold_2G00088660 Rroxscaffold_2G00088670 Rroxscaffold_2G00088680 Rroxscaffold_2G00088710 Rroxscaffold_3G00226660 Rroxscaffold_3G00226670 Rroxscaffold_3G00258720
rosa_rugosa Rorug02G0490500 Rorug02G0490600 Rorug02G0491600 Rorug02G0491800 Rorug02G0491800 Rorug02G0494100 Rorug05G0410900 Rorug07G0037000 Rorug07G0286000
rosa_samantha Rh2AG157300 Rh2AG556800 Rh2AG557500 Rh2AG557800 Rh2AG560100 Rh2BG163600 Rh2BG391200 Rh2BG570100 Rh2BG570600 Rh2BG571000 Rh2BG571100 Rh2BG571400 Rh2CG540600 Rh2CG541100 Rh2CG541400 Rh2CG541500 Rh2CG543700 Rh2DG162500 Rh2DG580000 Rh2DG580200 Rh2DG580300 Rh5AG047700 Rh5AG047800 Rh5BG046400 Rh5BG485500 Rh5CG055100 Rh5CG055200 Rh5CG510000 Rh5DG046200 Rh5DG496700 Rh7AG440700 Rh7AG468400 Rh7BG164100 Rh7BG413500 Rh7BG413600 Rh7CG170200 Rh7CG462400 Rh7CG462500 Rh7DG331400 Rh7DG430400
rosa_wichuraiana Rw2G046080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 404
AclWI GGATC 3 cut(s) 100, 113, 383
AcuI CTGAAG 1 cut(s) 131
AfaI GTAC 1 cut(s) 143
AgsI TTSAA 7 cut(s) 98, 170, 187, 208, 482, 499, 521
AluBI AGCT 5 cut(s) 11, 278, 401, 414, 551
AluI AGCT 5 cut(s) 11, 278, 401, 414, 551
Alw26I GTCTC 4 cut(s) 76, 150, 346, 462
AlwI GGATC 3 cut(s) 100, 113, 383
AoxI GGCC 1 cut(s) 250
ArsI GACNNNNNNTTYG 4 cut(s) 149, 181, 461, 493
AsuNHI GCTAGC 1 cut(s) 11
BamHI GGATCC 1 cut(s) 105
BbsI GAAGAC 1 cut(s) 196
BbvCI CCTCAGC 1 cut(s) 177
BccI CCATC 4 cut(s) 32, 221, 313, 575
BcoDI GTCTC 4 cut(s) 76, 150, 346, 462
BfaI CTAG 3 cut(s) 12, 338, 434
BlpI GCTNAGC 1 cut(s) 547
BmiI GGNNCC 1 cut(s) 107
BmrI ACTGGG 1 cut(s) 384
BmsI GCATC 3 cut(s) 29, 39, 299
BmtI GCTAGC 1 cut(s) 15
BmuI ACTGGG 1 cut(s) 384
BpiI GAAGAC 1 cut(s) 196
Bpu10I CCTNAGC 1 cut(s) 177
Bpu1102I GCTNAGC 1 cut(s) 547
BsaI GGTCTC 1 cut(s) 76
BsaJI CCNNGG 1 cut(s) 294
Bse1I ACTGG 1 cut(s) 390
Bse3DI GCAATG 1 cut(s) 22
BseDI CCNNGG 1 cut(s) 294
BseGI GGATG 2 cut(s) 20, 290
BseMI GCAATG 1 cut(s) 22
BseMII CTCAG 2 cut(s) 168, 561
BseNI ACTGG 1 cut(s) 390
BseYI CCCAGC 1 cut(s) 410
BshFI GGCC 1 cut(s) 252
BslFI GGGAC 1 cut(s) 378
BsmAI GTCTC 4 cut(s) 76, 150, 346, 462
BsmFI GGGAC 1 cut(s) 378
BsnI GGCC 1 cut(s) 252
Bso31I GGTCTC 1 cut(s) 76
Bsp143I GATC 2 cut(s) 105, 375
Bsp1720I GCTNAGC 1 cut(s) 547
Bsp19I CCATGG 1 cut(s) 294
BspACI CCGC 1 cut(s) 404
BspANI GGCC 1 cut(s) 252
BspCNI CTCAG 2 cut(s) 169, 560
BspLI GGNNCC 1 cut(s) 107
BspOI GCTAGC 1 cut(s) 15
BspPI GGATC 3 cut(s) 100, 113, 383
BspTNI GGTCTC 1 cut(s) 76
BsrDI GCAATG 1 cut(s) 22
BsrI ACTGG 1 cut(s) 390
BssECI CCNNGG 1 cut(s) 294
BssMI GATC 2 cut(s) 105, 375
BssT1I CCWWGG 1 cut(s) 294
Bst4CI ACNGT 2 cut(s) 43, 313
Bst6I CTCTTC 1 cut(s) 560
BstC8I GCNNGC 2 cut(s) 13, 117
BstDEI CTNAG 4 cut(s) 177, 198, 489, 547
BstDSI CCRYGG 1 cut(s) 294
BstF5I GGATG 2 cut(s) 20, 290
BstKTI GATC 2 cut(s) 108, 378
BstMAI GTCTC 4 cut(s) 76, 150, 346, 462
BstMBI GATC 2 cut(s) 105, 375
BstMWI GCNNNNNNNGC 1 cut(s) 17
BstNSI RCATGY 1 cut(s) 477
BstV2I GAAGAC 1 cut(s) 196
BstX2I RGATCY 2 cut(s) 105, 375
BstYI RGATCY 2 cut(s) 105, 375
BsuRI GGCC 1 cut(s) 252
BtgI CCRYGG 1 cut(s) 294
BtsCI GGATG 2 cut(s) 20, 290
BtsIMutI CAGTG 2 cut(s) 144, 453
Cac8I GCNNGC 2 cut(s) 13, 117
Csp6I GTAC 1 cut(s) 142
CviAII CATG 2 cut(s) 295, 474
CviQI GTAC 1 cut(s) 142
DdeI CTNAG 4 cut(s) 177, 198, 489, 547
DpnI GATC 2 cut(s) 107, 377
DpnII GATC 2 cut(s) 105, 375
Eam1104I CTCTTC 1 cut(s) 560
EarI CTCTTC 1 cut(s) 560
EciI GGCGGA 1 cut(s) 393
Eco130I CCWWGG 1 cut(s) 294
Eco31I GGTCTC 1 cut(s) 76
Eco57I CTGAAG 1 cut(s) 131
EcoT14I CCWWGG 1 cut(s) 294
EcoT22I ATGCAT 2 cut(s) 22, 292
ErhI CCWWGG 1 cut(s) 294
FaeI CATG 2 cut(s) 298, 477
FaiI YATR 7 cut(s) 32, 296, 302, 398, 453, 475, 560
FaqI GGGAC 1 cut(s) 378
FatI CATG 2 cut(s) 294, 473
FokI GGATG 2 cut(s) 7, 277
FspBI CTAG 3 cut(s) 12, 338, 434
GsaI CCCAGC 1 cut(s) 414
HaeIII GGCC 1 cut(s) 252
Hin1II CATG 2 cut(s) 298, 477
HinfI GANTC 2 cut(s) 134, 443
Hpy166II GTNNAC 1 cut(s) 142
Hpy188I TCNGA 3 cut(s) 48, 318, 368
Hpy188III TCNNGA 3 cut(s) 95, 109, 379
Hpy8I GTNNAC 1 cut(s) 142
HpyAV CCTTC 1 cut(s) 344
HpyCH4III ACNGT 2 cut(s) 43, 313
HpyCH4IV ACGT 1 cut(s) 494
HpyCH4V TGCA 4 cut(s) 20, 234, 290, 512
HpyF10VI GCNNNNNNNGC 1 cut(s) 17
HpyF3I CTNAG 4 cut(s) 177, 198, 489, 547
HpySE526I ACGT 1 cut(s) 494
Hsp92II CATG 2 cut(s) 298, 477
Kzo9I GATC 2 cut(s) 105, 375
LmnI GCTCC 1 cut(s) 406
LpnPI CCDG 6 cut(s) 122, 129, 137, 175, 403, 424
LweI GCATC 3 cut(s) 29, 39, 299
MaeI CTAG 3 cut(s) 12, 338, 434
MaeII ACGT 1 cut(s) 494
MalI GATC 2 cut(s) 107, 377
MboI GATC 2 cut(s) 105, 375
MboII GAAGA 2 cut(s) 196, 547
MfeI CAATTG 2 cut(s) 229, 541
MflI RGATCY 2 cut(s) 105, 375
MluCI AATT 6 cut(s) 171, 208, 229, 359, 541, 587
MnlI CCTC 5 cut(s) 172, 396, 417, 430, 435
Mph1103I ATGCAT 2 cut(s) 22, 292
MseI TTAA 2 cut(s) 590, 595
MslI CAYNNNNRTG 2 cut(s) 29, 299
MunI CAATTG 2 cut(s) 229, 541
MwoI GCNNNNNNNGC 1 cut(s) 17
NcoI CCATGG 1 cut(s) 294
NdeII GATC 2 cut(s) 105, 375
NheI GCTAGC 1 cut(s) 11
NlaIII CATG 2 cut(s) 298, 477
NlaIV GGNNCC 1 cut(s) 107
NsiI ATGCAT 2 cut(s) 22, 292
NspI RCATGY 1 cut(s) 477
PfeI GAWTC 2 cut(s) 134, 443
PspFI CCCAGC 1 cut(s) 410
PspN4I GGNNCC 1 cut(s) 107
PsuI RGATCY 2 cut(s) 105, 375
RsaI GTAC 1 cut(s) 143
RsaNI GTAC 1 cut(s) 142
RseI CAYNNNNRTG 2 cut(s) 29, 299
SaqAI TTAA 2 cut(s) 590, 595
Sau3AI GATC 2 cut(s) 105, 375
SfaNI GCATC 3 cut(s) 29, 39, 299
SmiMI CAYNNNNRTG 2 cut(s) 29, 299
Sse9I AATT 6 cut(s) 171, 208, 229, 359, 541, 587
SsiI CCGC 1 cut(s) 404
SspMI CTAG 3 cut(s) 12, 338, 434
StyI CCWWGG 1 cut(s) 294
TaaI ACNGT 2 cut(s) 43, 313
TaiI ACGT 1 cut(s) 497
TasI AATT 6 cut(s) 171, 208, 229, 359, 541, 587
TfiI GAWTC 2 cut(s) 134, 443
Tru1I TTAA 2 cut(s) 590, 595
Tru9I TTAA 2 cut(s) 590, 595
TscAI CASTG 2 cut(s) 144, 453
TspDTI ATGAA 3 cut(s) 47, 317, 547
TspRI CASTG 2 cut(s) 144, 453
XceI RCATGY 1 cut(s) 477
XcmI CCANNNNNNNNNTGG 1 cut(s) 292
XspI CTAG 3 cut(s) 12, 338, 434
Zsp2I ATGCAT 2 cut(s) 22, 292
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.