Rorug06G0404000

Peptidoglycan-binding LysM domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0013680
Physical Location & Seq
Reverse (-)
54789238 .. 54794392
5155 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0404000.1

Sequence Viewer

Length: 1647 bp
ATGGTGGAAACAGGACACAACCACAACCACACTCCGCCACCTCCGACGGCTCCACCGCCTGCTCGTCTACCGCTTGGAGCGGCGAGGGGCCCGTCATGGACTCCAACAGAGCAACTCCACCAGCTTCAGTATTGCATCCACTCCAATCCCTCTTGGCCGGAGACATTCTTACTGGCTTTTCAGCACTATATTGTCATGCTTGGATCTATAGTTTTGATTGCCAGTACACTTGTGCCTCGGATGGGTGGGGATCATGGTGATAAAGCCCGCGTTATTCAGACGTTGCTTTTCATGTCAGCAATAAACACCTTGCTTCAAACGTTTTTTGGATCAAGGCTTCCAACGGTGATGAATCCCTCATTCGCTTATATGCTGCCAGTGTCGTCGATCATTAATGATTACTCTAATAGGACTTTTAAAAGTGAACATGAGAGATTTGAGGTCACAATGAGAACGATTCAAGGATCCCTTATTGTATCTTCCTTCATCAACATCTTCATTGGCTATAGTAGAGCATGGGGAAGCTGTACAAAGCGCTTTAGTCCCATTGTTATCGTGCCAGTGGTTTGTGTGGTTGGTCTTGGTCTTTTCGCGAGGGGCTTTCCACTTCTTGCTAATTGTGTGGAGCTTGGCCTGCCTATGCTGATACTGCTGGTCATTACCCAACAGTATCTGAGGCGCATTATTCATAGAGCACATGCCATACTTGAGAGGTATGGTTTGCTTCTCTGCGTTGGGATTGTCTGGTCATTTGCTGCTATCCTCACCGAGGCTGGTACTTATAACAATGTTGGAGAGCAGACTAAACAAAGTTGCCGTACAGATCACTCTTACCTTATAACCTCTGCTCCTTGGATTAGAATCTCATATCCATTTCAGTGGGGTGCACCCATATTCAGAGCAAGCCATGTCTTTGGGATGATGGGAGCAGCAATTGTCACAACTGCAGAGACAACTGGAACATTGTTTGCAGCAGCACGGCTTTCAGGTGCTACCCCCCCTCCAGCACACGTCTTGAGCAGCAGCATTGGCCTACAGGGTATTGGCATGCTGCTTGAAGGAATATTTGGTGCTGCTGTTGGTACCACTGCATCAGTAGAAAATGTGGGCCTGCTTGGATTGACACACATAGGGAGCAGGAGAGTAGTGCAGATATCAACTGCTTTCATGTTCTTCTTCTCTATATTTGGGAAGTTTGGTGCTTTCTTTGCATCTATTCCCTTACCAATCTTCGCCGCTATATACTGTGTTTTATTTGGGATTGTTGCTGCTGTTGGGATCAGTTTCATGCAGTTTGTGAATAATAATTCCTTAAGAAACATGTACGTTGTGGGGCTTTCCCTGTTTCTTGGGATATCAATACCTCAATATTTTATCACGACCACAACTGCAGATGGTGTCGGACCAGTTAGAACAGATGGTATATGGTTTGACGATTGGTTGAACACTATCTTCTCTTCGAGCCCGACAGTGGCAATCATCGTCGGGACGCTGCTTGACAACACGCTCGACGCCAAGTCTTCAGTCAATGACAGAGGGCTTGGATGGTGGAAGCCCTTCCAGCACAGGAATGGAGATGTTAGAAATGAAGAATTTTATAGCCTTCCTCTTAGAATACGCGAGTATCTCCCCAGTAGATTTCTCTGA
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

548

Amino Acids

60.21

Weight (kDa)

9.17

Isoelectric Point (pI)

35.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Xan_ur_permease PF00860 54 - 458 7.8e-64 Permease family
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: OG0013680)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g18360 FvH4_5g18360
malus_domestica MD06G1239300.v1.1 MD14G1245200.v1.1
prunus_persica Prupe.5G243200_v2.0.a1
pyrus_communis pycom06g21490 pycom14g20620
rosa_chinensis RchiOBHm_Chr7g0177231
rosa_laevigata RLG00000005554
rosa_multiflora Rmu_sc0005310.1_g000015 Rmu_sc0024964.1_g000001
rosa_roxburghii Rroxscaffold_3G00276030
rosa_rugosa Rorug06G0404000
rosa_samantha Rh7AG004000 Rh7BG003800 Rh7CG003700 Rh7DG003700
rosa_wichuraiana Rw7G000320

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 783, 839
Acc65I GGTACC 1 cut(s) 1082
AccB1I GGYRCC 1 cut(s) 1082
AccBSI CCGCTC 1 cut(s) 80
AccI GTMKAC 1 cut(s) 67
AccII CGCG 3 cut(s) 270, 593, 1620
AciI CCGC 6 cut(s) 35, 56, 71, 80, 268, 1236
AclI AACGTT 1 cut(s) 320
AclWI GGATC 6 cut(s) 211, 258, 337, 459, 472, 1286
AcoI YGGCCR 1 cut(s) 155
AcsI RAATTY 1 cut(s) 1592
AcuI CTGAAG 2 cut(s) 110, 1506
AcyI GRCGYC 1 cut(s) 1512
AfaI GTAC 6 cut(s) 226, 529, 778, 820, 1084, 1325
AfeI AGCGCT 1 cut(s) 536
AfiI CCNNNNNNNGG 3 cut(s) 242, 769, 1471
AflII CTTAAG 1 cut(s) 1312
AflIII ACRYGT 2 cut(s) 1009, 1320
AgsI TTSAA 4 cut(s) 317, 461, 1058, 1444
AhdI GACNNNNNGTC 1 cut(s) 1516
AjiI CACGTC 1 cut(s) 1012
AjuI GAANNNNNNNTTGG 2 cut(s) 1050, 1082
AluBI AGCT 3 cut(s) 124, 525, 628
AluI AGCT 3 cut(s) 124, 525, 628
Alw21I GWGCWC 2 cut(s) 697, 889
Alw26I GTCTC 2 cut(s) 155, 944
Alw44I GTGCAC 1 cut(s) 885
AlwI GGATC 6 cut(s) 211, 258, 337, 459, 472, 1286
AlwNI CAGNNNCTG 1 cut(s) 673
Aor51HI AGCGCT 1 cut(s) 536
AoxI GGCC 5 cut(s) 88, 155, 631, 1030, 1108
ApaI GGGCCC 1 cut(s) 92
ApaLI GTGCAC 1 cut(s) 885
ApoI RAATTY 1 cut(s) 1592
AseI ATTAAT 1 cut(s) 393
Asp700I GAANNNNTTC 1 cut(s) 1556
Asp718I GGTACC 1 cut(s) 1082
AspLEI GCGC 2 cut(s) 537, 681
AspS9I GGNCC 4 cut(s) 88, 89, 1108, 1403
AsuHPI GGTGA 3 cut(s) 269, 358, 757
AvaII GGWCC 1 cut(s) 1403
BaeGI GKGCMC 2 cut(s) 92, 889
BaeI ACNNNNGTAYC 2 cut(s) 1607, 1640
BamHI GGATCC 1 cut(s) 464
BanI GGYRCC 1 cut(s) 1082
BanII GRGCYC 2 cut(s) 92, 1466
BbsI GAAGAC 1 cut(s) 1512
Bbv12I GWGCWC 2 cut(s) 697, 889
BccI CCATC 5 cut(s) 235, 916, 1388, 1412, 1539
BceAI ACGGC 3 cut(s) 63, 801, 995
BcoDI GTCTC 2 cut(s) 155, 944
BfmI CTRYAG 5 cut(s) 207, 505, 945, 1034, 1389
BfoI RGCGCY 1 cut(s) 538
BfrI CTTAAG 1 cut(s) 1312
Bme18I GGWCC 1 cut(s) 1403
BmeRI GACNNNNNGTC 1 cut(s) 1516
BmgBI CACGTC 1 cut(s) 1012
BmgT120I GGNCC 4 cut(s) 88, 89, 1108, 1403
BmiI GGNNCC 5 cut(s) 51, 89, 90, 466, 1084
BmrI ACTGGG 1 cut(s) 1626
BmsI GCATC 3 cut(s) 144, 1100, 1220
BmuI ACTGGG 1 cut(s) 1626
BpiI GAAGAC 1 cut(s) 1512
BpmI CTGGAG 1 cut(s) 987
BpuEI CTTGAG 2 cut(s) 728, 1036
BsaBI GATNNNNATC 1 cut(s) 860
BsaHI GRCGYC 1 cut(s) 1512
BsaJI CCNNGG 3 cut(s) 236, 768, 851
BsaXI ACNNNNNCTCC 4 cut(s) 832, 862, 985, 1015
Bsc4I CCNNNNNNNGG 3 cut(s) 242, 769, 1471
Bse1I ACTGG 7 cut(s) 177, 222, 377, 560, 961, 1406, 1632
Bse8I GATNNNNATC 1 cut(s) 860
BseDI CCNNGG 3 cut(s) 236, 768, 851
BseGI GGATG 4 cut(s) 135, 246, 924, 1550
BseJI GATNNNNATC 1 cut(s) 860
BseLI CCNNNNNNNGG 3 cut(s) 242, 769, 1471
BseMII CTCAG 1 cut(s) 665
BseNI ACTGG 7 cut(s) 177, 222, 377, 560, 961, 1406, 1632
BseSI GKGCMC 2 cut(s) 92, 889
BsgI GTGCAG 1 cut(s) 1169
Bsh1236I CGCG 3 cut(s) 270, 593, 1620
BshFI GGCC 5 cut(s) 90, 157, 633, 1032, 1110
BshNI GGYRCC 1 cut(s) 1082
BsiHKAI GWGCWC 2 cut(s) 697, 889
BsiSI CCGG 1 cut(s) 158
BslFI GGGAC 2 cut(s) 528, 1501
BslI CCNNNNNNNGG 3 cut(s) 242, 769, 1471
BsmAI GTCTC 2 cut(s) 155, 944
BsmFI GGGAC 2 cut(s) 528, 1501
BsnI GGCC 5 cut(s) 90, 157, 633, 1032, 1110
Bsp120I GGGCCC 1 cut(s) 88
Bsp1286I GDGCHC 4 cut(s) 92, 697, 889, 1466
Bsp1407I TGTACA 1 cut(s) 527
Bsp143I GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
Bsp68I TCGCGA 1 cut(s) 593
BspACI CCGC 6 cut(s) 35, 56, 71, 80, 268, 1236
BspANI GGCC 5 cut(s) 90, 157, 633, 1032, 1110
BspCNI CTCAG 1 cut(s) 666
BspFNI CGCG 3 cut(s) 270, 593, 1620
BspLI GGNNCC 5 cut(s) 51, 89, 90, 466, 1084
BspMAI CTGCAG 2 cut(s) 949, 1393
BspPI GGATC 6 cut(s) 211, 258, 337, 459, 472, 1286
BspT107I GGYRCC 1 cut(s) 1082
BspTI CTTAAG 1 cut(s) 1312
BsrBI CCGCTC 1 cut(s) 80
BsrGI TGTACA 1 cut(s) 527
BsrI ACTGG 7 cut(s) 177, 222, 377, 560, 961, 1406, 1632
BssECI CCNNGG 3 cut(s) 236, 768, 851
BssMI GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
BssNI GRCGYC 1 cut(s) 1512
BssT1I CCWWGG 1 cut(s) 851
Bst4CI ACNGT 4 cut(s) 346, 669, 1247, 1471
Bst6I CTCTTC 1 cut(s) 1462
BstACI GRCGYC 1 cut(s) 1512
BstAFI CTTAAG 1 cut(s) 1312
BstAUI TGTACA 1 cut(s) 527
BstC8I GCNNGC 6 cut(s) 60, 268, 635, 904, 1049, 1112
BstDEI CTNAG 2 cut(s) 674, 1610
BstENI CCTNNNNNAGG 1 cut(s) 767
BstF5I GGATG 4 cut(s) 135, 246, 924, 1550
BstFNI CGCG 3 cut(s) 270, 593, 1620
BstH2I RGCGCY 1 cut(s) 538
BstHHI GCGC 2 cut(s) 537, 681
BstKTI GATC 7 cut(s) 206, 253, 332, 390, 467, 826, 1281
BstMAI GTCTC 2 cut(s) 155, 944
BstMBI GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
BstMWI GCNNNNNNNGC 5 cut(s) 634, 649, 1029, 1208, 1561
BstNSI RCATGY 3 cut(s) 701, 1051, 1324
BstSFI CTRYAG 5 cut(s) 207, 505, 945, 1034, 1389
BstSLI GKGCMC 2 cut(s) 92, 889
BstUI CGCG 3 cut(s) 270, 593, 1620
BstV2I GAAGAC 1 cut(s) 1512
BstX2I RGATCY 2 cut(s) 203, 464
BstXI CCANNNNNNTGG 2 cut(s) 879, 914
BstYI RGATCY 2 cut(s) 203, 464
BsuRI GGCC 5 cut(s) 90, 157, 633, 1032, 1110
BtrI CACGTC 1 cut(s) 1012
BtsCI GGATG 4 cut(s) 135, 246, 924, 1550
BtsI GCAGTG 1 cut(s) 1086
BtsIMutI CAGTG 5 cut(s) 384, 567, 884, 1086, 1476
BtuMI TCGCGA 1 cut(s) 593
Cac8I GCNNGC 6 cut(s) 60, 268, 635, 904, 1049, 1112
CaiI CAGNNNCTG 1 cut(s) 673
CfoI GCGC 2 cut(s) 537, 681
Cfr13I GGNCC 4 cut(s) 88, 89, 1108, 1403
CseI GACGC 2 cut(s) 1498, 1520
Csp6I GTAC 6 cut(s) 225, 528, 777, 819, 1083, 1324
CviQI GTAC 6 cut(s) 225, 528, 777, 819, 1083, 1324
DdeI CTNAG 2 cut(s) 674, 1610
DpnI GATC 7 cut(s) 205, 252, 331, 389, 466, 825, 1280
DpnII GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
DraI TTTAAA 1 cut(s) 418
DriI GACNNNNNGTC 1 cut(s) 1516
EaeI YGGCCR 1 cut(s) 155
Eam1104I CTCTTC 1 cut(s) 1462
Eam1105I GACNNNNNGTC 1 cut(s) 1516
EarI CTCTTC 1 cut(s) 1462
EciI GGCGGA 1 cut(s) 24
Eco130I CCWWGG 1 cut(s) 851
Eco24I GRGCYC 2 cut(s) 92, 1466
Eco32I GATATC 2 cut(s) 1155, 1356
Eco47I GGWCC 1 cut(s) 1403
Eco47III AGCGCT 1 cut(s) 536
Eco57I CTGAAG 2 cut(s) 110, 1506
EcoNI CCTNNNNNAGG 1 cut(s) 767
EcoO109I RGGNCCY 1 cut(s) 88
EcoRV GATATC 2 cut(s) 1155, 1356
EcoT14I CCWWGG 1 cut(s) 851
EcoT38I GRGCYC 2 cut(s) 92, 1466
ErhI CCWWGG 1 cut(s) 851
FalI AAGNNNNNCTT 2 cut(s) 453, 485
FaqI GGGAC 2 cut(s) 528, 1501
FauI CCCGC 1 cut(s) 275
FblI GTMKAC 1 cut(s) 67
FokI GGATG 4 cut(s) 122, 253, 931, 1557
FriOI GRGCYC 2 cut(s) 92, 1466
GlaI GCGC 2 cut(s) 536, 680
GsuI CTGGAG 1 cut(s) 987
HaeII RGCGCY 1 cut(s) 538
HaeIII GGCC 5 cut(s) 90, 157, 633, 1032, 1110
HapII CCGG 1 cut(s) 158
HgaI GACGC 2 cut(s) 1498, 1520
HhaI GCGC 2 cut(s) 537, 681
Hin1I GRCGYC 1 cut(s) 1512
Hin6I GCGC 2 cut(s) 535, 679
HinP1I GCGC 2 cut(s) 535, 679
HinfI GANTC 4 cut(s) 100, 352, 457, 861
HpaII CCGG 1 cut(s) 158
HphI GGTGA 3 cut(s) 269, 358, 757
Hpy166II GTNNAC 4 cut(s) 68, 227, 425, 887
Hpy188I TCNGA 7 cut(s) 45, 240, 279, 675, 899, 1403, 1646
Hpy188III TCNNGA 4 cut(s) 592, 1015, 1378, 1486
Hpy8I GTNNAC 4 cut(s) 68, 227, 425, 887
Hpy99I CGWCG 4 cut(s) 49, 388, 1487, 1514
HpyAV CCTTC 4 cut(s) 493, 1052, 1567, 1613
HpyCH4III ACNGT 4 cut(s) 346, 669, 1247, 1471
HpyCH4IV ACGT 4 cut(s) 281, 320, 1011, 1326
HpyCH4V TGCA 9 cut(s) 135, 887, 947, 971, 1091, 1150, 1211, 1291, 1391
HpyF10VI GCNNNNNNNGC 5 cut(s) 634, 649, 1029, 1208, 1561
HpyF3I CTNAG 2 cut(s) 674, 1610
HpySE526I ACGT 4 cut(s) 281, 320, 1011, 1326
Hsp92I GRCGYC 1 cut(s) 1512
HspAI GCGC 2 cut(s) 535, 679
KpnI GGTACC 1 cut(s) 1086
Kzo9I GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
LmnI GCTCC 6 cut(s) 55, 77, 625, 853, 926, 1134
LweI GCATC 3 cut(s) 144, 1100, 1220
MaeII ACGT 4 cut(s) 281, 320, 1011, 1326
MaeIII GTNAC 2 cut(s) 442, 937
MalI GATC 7 cut(s) 205, 252, 331, 389, 466, 825, 1280
MbiI CCGCTC 1 cut(s) 80
MboI GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
MboII GAAGA 9 cut(s) 471, 487, 1165, 1168, 1222, 1444, 1449, 1512, 1601
MfeI CAATTG 1 cut(s) 933
MflI RGATCY 2 cut(s) 203, 464
MhlI GDGCHC 4 cut(s) 92, 697, 889, 1466
MluCI AATT 4 cut(s) 616, 933, 1306, 1592
MlyI GAGTC 1 cut(s) 94
MmeI TCCRAC 5 cut(s) 68, 128, 365, 772, 1381
MroXI GAANNNNTTC 1 cut(s) 1556
MseI TTAA 3 cut(s) 393, 417, 1313
MslI CAYNNNNRTG 2 cut(s) 877, 1569
MspCI CTTAAG 1 cut(s) 1312
MspI CCGG 1 cut(s) 158
MunI CAATTG 1 cut(s) 933
MvnI CGCG 3 cut(s) 270, 593, 1620
MwoI GCNNNNNNNGC 5 cut(s) 634, 649, 1029, 1208, 1561
NdeII GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
NlaIV GGNNCC 5 cut(s) 51, 89, 90, 466, 1084
NmuCI GTSAC 2 cut(s) 442, 937
NruI TCGCGA 1 cut(s) 593
NspI RCATGY 3 cut(s) 701, 1051, 1324
PaeI GCATGC 1 cut(s) 1051
PciI ACATGT 1 cut(s) 1320
PdmI GAANNNNTTC 1 cut(s) 1556
PfeI GAWTC 3 cut(s) 352, 457, 861
PleI GAGTC 1 cut(s) 94
PpsI GAGTC 1 cut(s) 94
PscI ACATGT 1 cut(s) 1320
PshBI ATTAAT 1 cut(s) 393
PsiI TTATAA 2 cut(s) 783, 839
Psp1406I AACGTT 1 cut(s) 320
PspN4I GGNNCC 5 cut(s) 51, 89, 90, 466, 1084
PspOMI GGGCCC 1 cut(s) 88
PspPI GGNCC 4 cut(s) 88, 89, 1108, 1403
PstI CTGCAG 2 cut(s) 949, 1393
PstNI CAGNNNCTG 1 cut(s) 673
PsuI RGATCY 2 cut(s) 203, 464
RruI TCGCGA 1 cut(s) 593
RsaI GTAC 6 cut(s) 226, 529, 778, 820, 1084, 1325
RsaNI GTAC 6 cut(s) 225, 528, 777, 819, 1083, 1324
RseI CAYNNNNRTG 2 cut(s) 877, 1569
SaqAI TTAA 3 cut(s) 393, 417, 1313
Sau3AI GATC 7 cut(s) 203, 250, 329, 387, 464, 823, 1278
Sau96I GGNCC 4 cut(s) 88, 89, 1108, 1403
SchI GAGTC 1 cut(s) 94
SduI GDGCHC 4 cut(s) 92, 697, 889, 1466
SfaNI GCATC 3 cut(s) 144, 1100, 1220
SfcI CTRYAG 5 cut(s) 207, 505, 945, 1034, 1389
SinI GGWCC 1 cut(s) 1403
SmiMI CAYNNNNRTG 2 cut(s) 877, 1569
SmlI CTYRAG 3 cut(s) 707, 1015, 1312
SmoI CTYRAG 3 cut(s) 707, 1015, 1312
SphI GCATGC 1 cut(s) 1051
Sse9I AATT 4 cut(s) 616, 933, 1306, 1592
SsiI CCGC 6 cut(s) 35, 56, 71, 80, 268, 1236
SspI AATATT 2 cut(s) 1065, 1370
StyI CCWWGG 1 cut(s) 851
TaaI ACNGT 4 cut(s) 346, 669, 1247, 1471
TaiI ACGT 4 cut(s) 284, 323, 1014, 1329
TaqI TCGA 3 cut(s) 386, 1460, 1509
TasI AATT 4 cut(s) 616, 933, 1306, 1592
TatI WGTACW 2 cut(s) 224, 527
TauI GCSGC 2 cut(s) 83, 1238
TfiI GAWTC 3 cut(s) 352, 457, 861
Tru1I TTAA 3 cut(s) 393, 417, 1313
Tru9I TTAA 3 cut(s) 393, 417, 1313
TscAI CASTG 5 cut(s) 384, 567, 884, 1093, 1476
TseFI GTSAC 2 cut(s) 442, 937
Tsp45I GTSAC 2 cut(s) 442, 937
TspDTI ATGAA 8 cut(s) 280, 365, 475, 487, 677, 1156, 1276, 1602
TspRI CASTG 5 cut(s) 384, 567, 884, 1093, 1476
Vha464I CTTAAG 1 cut(s) 1312
VneI GTGCAC 1 cut(s) 885
VpaK11BI GGWCC 1 cut(s) 1403
VspI ATTAAT 1 cut(s) 393
XagI CCTNNNNNAGG 1 cut(s) 767
XapI RAATTY 1 cut(s) 1592
XceI RCATGY 3 cut(s) 701, 1051, 1324
XcmI CCANNNNNNNNNTGG 1 cut(s) 1568
XmiI GTMKAC 1 cut(s) 67
XmnI GAANNNNTTC 1 cut(s) 1556
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.