Rmu_sc0007000.1_g000002

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0007000.1
OG0000334
Physical Location & Seq
Reverse (-)
4793 .. 5765
973 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0007000.1_g000002.1.cds

Sequence Viewer

Length: 315 bp
atgcgatctttgcttcacaagaagaagaaagatatggctaggtgtcacgggccgaactttgcaatgtgcaaagcggaccgtgcggcacttgctagcaagcaagtcagccaactgaacgcagttggatttgcagggaagaagacttcgaacctgatttgtaatgacatttatggtgcagaggaaggtgatacttgcagtcttgttgctgaaatgttcaacctgagtctcgatttcttccttgccatcaaccctaatatcaattgcgacagcttctttgtgggtcaatggctttgcgttgatggtgctcagaagtga
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

104

Amino Acids

11.39

Weight (kDa)

8.24

Isoelectric Point (pI)

21.88

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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 2 cut(s) 74, 83
AgsI TTSAA 1 cut(s) 217
AluBI AGCT 1 cut(s) 270
AluI AGCT 1 cut(s) 270
Alw21I GWGCWC 1 cut(s) 307
Alw26I GTCTC 1 cut(s) 230
AoxI GGCC 1 cut(s) 50
ArsI GACNNNNNNTTYG 2 cut(s) 257, 289
AspS9I GGNCC 2 cut(s) 50, 76
AsuHPI GGTGA 1 cut(s) 197
AsuII TTCGAA 1 cut(s) 146
AsuNHI GCTAGC 1 cut(s) 92
AvaII GGWCC 1 cut(s) 76
BbsI GAAGAC 1 cut(s) 146
Bbv12I GWGCWC 1 cut(s) 307
BccI CCATC 2 cut(s) 251, 293
BcoDI GTCTC 1 cut(s) 230
BfaI CTAG 2 cut(s) 39, 93
BisI GCNGC 1 cut(s) 84
BlsI GCNGC 1 cut(s) 85
Bme18I GGWCC 1 cut(s) 76
BmgT120I GGNCC 2 cut(s) 50, 76
BmtI GCTAGC 1 cut(s) 96
BpiI GAAGAC 1 cut(s) 146
Bpu14I TTCGAA 1 cut(s) 146
Bse3DI GCAATG 1 cut(s) 69
BseMI GCAATG 1 cut(s) 69
BseMII CTCAG 1 cut(s) 212
BsgI GTGCAG 1 cut(s) 195
BshFI GGCC 1 cut(s) 52
BsiHKAI GWGCWC 1 cut(s) 307
BsmAI GTCTC 1 cut(s) 230
BsnI GGCC 1 cut(s) 52
Bsp119I TTCGAA 1 cut(s) 146
Bsp1286I GDGCHC 1 cut(s) 307
Bsp143I GATC 1 cut(s) 5
BspACI CCGC 2 cut(s) 74, 83
BspANI GGCC 1 cut(s) 52
BspCNI CTCAG 1 cut(s) 213
BspOI GCTAGC 1 cut(s) 96
BspT104I TTCGAA 1 cut(s) 146
BsrDI GCAATG 1 cut(s) 69
BssMI GATC 1 cut(s) 5
Bst4CI ACNGT 1 cut(s) 80
BstBI TTCGAA 1 cut(s) 146
BstC8I GCNNGC 2 cut(s) 94, 98
BstDEI CTNAG 2 cut(s) 221, 306
BstKTI GATC 1 cut(s) 8
BstMAI GTCTC 1 cut(s) 230
BstMBI GATC 1 cut(s) 5
BstMWI GCNNNNNNNGC 3 cut(s) 10, 80, 89
BstV2I GAAGAC 1 cut(s) 146
BsuRI GGCC 1 cut(s) 52
Cac8I GCNNGC 2 cut(s) 94, 98
Cfr13I GGNCC 2 cut(s) 50, 76
CpoI CGGWCCG 1 cut(s) 76
CspI CGGWCCG 1 cut(s) 76
CviJI RGCY 5 cut(s) 38, 52, 108, 270, 289
CviKI_1 RGCY 5 cut(s) 38, 52, 108, 270, 289
DdeI CTNAG 2 cut(s) 221, 306
DpnI GATC 1 cut(s) 7
DpnII GATC 1 cut(s) 5
Eco47I GGWCC 1 cut(s) 76
FaiI YATR 2 cut(s) 35, 171
Fnu4HI GCNGC 1 cut(s) 84
Fsp4HI GCNGC 1 cut(s) 84
FspBI CTAG 2 cut(s) 39, 93
GluI GCNGC 1 cut(s) 84
HaeIII GGCC 1 cut(s) 52
HinfI GANTC 1 cut(s) 223
HphI GGTGA 1 cut(s) 197
Hpy188I TCNGA 1 cut(s) 309
Hpy188III TCNNGA 1 cut(s) 227
HpyAV CCTTC 1 cut(s) 176
HpyCH4III ACNGT 1 cut(s) 80
HpyCH4V TGCA 5 cut(s) 62, 69, 131, 176, 195
HpyF10VI GCNNNNNNNGC 3 cut(s) 10, 80, 89
HpyF3I CTNAG 2 cut(s) 221, 306
Kzo9I GATC 1 cut(s) 5
LpnPI CCDG 3 cut(s) 117, 164, 233
MaeI CTAG 2 cut(s) 39, 93
MaeIII GTNAC 1 cut(s) 44
MalI GATC 1 cut(s) 7
MboI GATC 1 cut(s) 5
MboII GAAGA 5 cut(s) 34, 37, 148, 151, 226
MfeI CAATTG 1 cut(s) 259
MhlI GDGCHC 1 cut(s) 307
MluCI AATT 1 cut(s) 259
MlyI GAGTC 1 cut(s) 232
MmeI TCCRAC 1 cut(s) 103
MnlI CCTC 1 cut(s) 172
MunI CAATTG 1 cut(s) 259
MwoI GCNNNNNNNGC 3 cut(s) 10, 80, 89
NdeII GATC 1 cut(s) 5
NheI GCTAGC 1 cut(s) 92
NmuCI GTSAC 1 cut(s) 44
NspV TTCGAA 1 cut(s) 146
PkrI GCNGC 1 cut(s) 85
PleI GAGTC 1 cut(s) 231
PpsI GAGTC 1 cut(s) 231
PspPI GGNCC 2 cut(s) 50, 76
Rsr2I CGGWCCG 1 cut(s) 76
RsrII CGGWCCG 1 cut(s) 76
SatI GCNGC 1 cut(s) 84
Sau3AI GATC 1 cut(s) 5
Sau96I GGNCC 2 cut(s) 50, 76
SchI GAGTC 1 cut(s) 232
SduI GDGCHC 1 cut(s) 307
SetI ASST 5 cut(s) 44, 153, 187, 222, 272
SfuI TTCGAA 1 cut(s) 146
SinI GGWCC 1 cut(s) 76
Sse9I AATT 1 cut(s) 259
SsiI CCGC 2 cut(s) 74, 83
SspMI CTAG 2 cut(s) 39, 93
TaaI ACNGT 1 cut(s) 80
TaqI TCGA 2 cut(s) 146, 228
TasI AATT 1 cut(s) 259
TauI GCSGC 1 cut(s) 86
TseFI GTSAC 1 cut(s) 44
Tsp45I GTSAC 1 cut(s) 44
VpaK11BI GGWCC 1 cut(s) 76
XspI CTAG 2 cut(s) 39, 93
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.