Rroxscaffold_3G00258720

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000334
Physical Location & Seq
Reverse (-)
53163335 .. 53163982
648 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00258720.1

Sequence Viewer

Length: 324 bp
ATGGCAACAGTTCTGAACTTGATTGTGGTGCTCTCTCTTCTTCTCATGATTTCGATCTCTGAGAGTAGTACACAGCTTGGAGGTAAGAAGACTAATTTTGCTCATTATAATGTTTACGGTGCGGAGGTTGGCGATTCCTGCGATACTGTGACCGAAAAGTTCGGCTTGAGTCTAAAGTTCCTTGCAATCAATCGTAACAGAACGAGTGGGAGTGATCTCGTTGGGAAAGATGAGATTATTGTGGCAGAAAATGCTATAGGAAGCAATGTGATAGATTTAAACAGTGAGGCTTTGAGGAAGGAATGTGACAACAAGACTCGTTGA
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

107

Amino Acids

11.55

Weight (kDa)

5.3

Isoelectric Point (pI)

30.49

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)
AanI TTATAA 1 cut(s) 108
AciI CCGC 1 cut(s) 122
AfaI GTAC 1 cut(s) 70
AluBI AGCT 1 cut(s) 76
AluI AGCT 1 cut(s) 76
Alw21I GWGCWC 1 cut(s) 33
BbsI GAAGAC 1 cut(s) 95
Bbv12I GWGCWC 1 cut(s) 33
BfmI CTRYAG 1 cut(s) 255
BpiI GAAGAC 1 cut(s) 95
BpuEI CTTGAG 1 cut(s) 187
BsaBI GATNNNNATC 1 cut(s) 53
Bse3DI GCAATG 1 cut(s) 271
Bse8I GATNNNNATC 1 cut(s) 53
BseJI GATNNNNATC 1 cut(s) 53
BseMI GCAATG 1 cut(s) 271
BseMII CTCAG 1 cut(s) 51
BsiHKAI GWGCWC 1 cut(s) 33
Bsp1286I GDGCHC 1 cut(s) 33
Bsp143I GATC 2 cut(s) 54, 214
BspACI CCGC 1 cut(s) 122
BspCNI CTCAG 1 cut(s) 52
BspHI TCATGA 1 cut(s) 45
BsrDI GCAATG 1 cut(s) 271
BssMI GATC 2 cut(s) 54, 214
Bst4CI ACNGT 4 cut(s) 10, 119, 148, 284
Bst6I CTCTTC 1 cut(s) 42
BstAPI GCANNNNNTGC 1 cut(s) 251
BstDEI CTNAG 1 cut(s) 60
BstKTI GATC 2 cut(s) 57, 217
BstMBI GATC 2 cut(s) 54, 214
BstMWI GCNNNNNNNGC 2 cut(s) 138, 251
BstSFI CTRYAG 1 cut(s) 255
BstV2I GAAGAC 1 cut(s) 95
BtsIMutI CAGTG 1 cut(s) 289
CciI TCATGA 1 cut(s) 45
Csp6I GTAC 1 cut(s) 69
CviAII CATG 1 cut(s) 46
CviJI RGCY 3 cut(s) 76, 165, 290
CviKI_1 RGCY 3 cut(s) 76, 165, 290
CviQI GTAC 1 cut(s) 69
DdeI CTNAG 1 cut(s) 60
DpnI GATC 2 cut(s) 56, 216
DpnII GATC 2 cut(s) 54, 214
DraI TTTAAA 1 cut(s) 279
Eam1104I CTCTTC 1 cut(s) 42
EarI CTCTTC 1 cut(s) 42
FaeI CATG 1 cut(s) 49
FaiI YATR 3 cut(s) 47, 108, 257
FalI AAGNNNNNCTT 2 cut(s) 149, 181
FatI CATG 1 cut(s) 45
Hin1II CATG 1 cut(s) 49
HinfI GANTC 3 cut(s) 134, 169, 316
Hpy166II GTNNAC 2 cut(s) 71, 115
Hpy188I TCNGA 2 cut(s) 15, 61
Hpy188III TCNNGA 1 cut(s) 46
Hpy8I GTNNAC 2 cut(s) 71, 115
HpyAV CCTTC 1 cut(s) 292
HpyCH4III ACNGT 4 cut(s) 10, 119, 148, 284
HpyCH4V TGCA 1 cut(s) 185
HpyF10VI GCNNNNNNNGC 2 cut(s) 138, 251
HpyF3I CTNAG 1 cut(s) 60
Hsp92II CATG 1 cut(s) 49
Kzo9I GATC 2 cut(s) 54, 214
LpnPI CCDG 1 cut(s) 151
MaeIII GTNAC 3 cut(s) 148, 194, 305
MalI GATC 2 cut(s) 56, 216
MboI GATC 2 cut(s) 54, 214
MboII GAAGA 3 cut(s) 29, 32, 100
MhlI GDGCHC 1 cut(s) 33
MluCI AATT 1 cut(s) 94
MlyI GAGTC 2 cut(s) 178, 310
MnlI CCTC 4 cut(s) 74, 118, 280, 288
MseI TTAA 1 cut(s) 278
MslI CAYNNNNRTG 1 cut(s) 108
MwoI GCNNNNNNNGC 2 cut(s) 138, 251
NdeII GATC 2 cut(s) 54, 214
NlaIII CATG 1 cut(s) 49
NmuCI GTSAC 2 cut(s) 148, 305
PagI TCATGA 1 cut(s) 45
PfeI GAWTC 1 cut(s) 134
PleI GAGTC 2 cut(s) 177, 310
PpsI GAGTC 2 cut(s) 177, 310
PsiI TTATAA 1 cut(s) 108
RsaI GTAC 1 cut(s) 70
RsaNI GTAC 1 cut(s) 69
RseI CAYNNNNRTG 1 cut(s) 108
SaqAI TTAA 1 cut(s) 278
Sau3AI GATC 2 cut(s) 54, 214
SchI GAGTC 2 cut(s) 178, 310
SduI GDGCHC 1 cut(s) 33
SetI ASST 3 cut(s) 78, 85, 129
SfcI CTRYAG 1 cut(s) 255
SgeI CNNG 8 cut(s) 31, 58, 89, 150, 178, 194, 216, 230
SmiMI CAYNNNNRTG 1 cut(s) 108
SmlI CTYRAG 1 cut(s) 166
SmoI CTYRAG 1 cut(s) 166
Sse9I AATT 1 cut(s) 94
SsiI CCGC 1 cut(s) 122
TaaI ACNGT 4 cut(s) 10, 119, 148, 284
TaqI TCGA 1 cut(s) 53
TaqII GACCGA 1 cut(s) 167
TasI AATT 1 cut(s) 94
TatI WGTACW 1 cut(s) 68
TfiI GAWTC 1 cut(s) 134
Tru1I TTAA 1 cut(s) 278
Tru9I TTAA 1 cut(s) 278
TscAI CASTG 1 cut(s) 289
TseFI GTSAC 2 cut(s) 148, 305
Tsp45I GTSAC 2 cut(s) 148, 305
TspRI CASTG 1 cut(s) 289
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.