FvH4_3g03882

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000334
Physical Location & Seq
Forward (+)
2166172 .. 2166854
683 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g03882.t1

Sequence Viewer

Length: 300 bp
ATGGCTGAAGCAAATAGCAATGCATCCATGGTCGTCTTGACAGTTCTGATGCTGTCTTTTCTGCTCTTAGTCTCTTTCGCTGAAAGCCGATTTCTTGAAGAAGAAGGGCTAGGGATCCGGAAGCCAGCCACCCTGAAATGTGATTCAGTGTACGGTGTGAAAACTGGAGACACATGTTTTGAGATTGCTGAGGCTTTCAACTTGCCTACTGAGCTCTTCAATTCCATCAACCCCAATCTCAATTGCACAGCGCTCTTCGTAGGCCAATGGGTTTGTCTGGATGGAGTAATAAGTTCCTGA
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

100

Amino Acids

10.73

Weight (kDa)

4.29

Isoelectric Point (pI)

31.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 51 - 92 3.9e-09 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)
AccIII TCCGGA 1 cut(s) 117
AclWI GGATC 2 cut(s) 109, 122
AcuI CTGAAG 1 cut(s) 27
AfaI GTAC 1 cut(s) 152
AfeI AGCGCT 1 cut(s) 252
AflIII ACRYGT 1 cut(s) 173
AgsI TTSAA 3 cut(s) 98, 199, 220
AluBI AGCT 1 cut(s) 214
AluI AGCT 1 cut(s) 214
Alw21I GWGCWC 1 cut(s) 216
Alw26I GTCTC 2 cut(s) 76, 162
AlwI GGATC 2 cut(s) 109, 122
Aor13HI TCCGGA 1 cut(s) 117
Aor51HI AGCGCT 1 cut(s) 252
AoxI GGCC 1 cut(s) 262
ArsI GACNNNNNNTTYG 2 cut(s) 161, 193
AspLEI GCGC 1 cut(s) 253
BamHI GGATCC 1 cut(s) 114
BanII GRGCYC 1 cut(s) 216
Bbv12I GWGCWC 1 cut(s) 216
BbvCI CCTCAGC 1 cut(s) 189
BccI CCATC 2 cut(s) 233, 275
BcoDI GTCTC 2 cut(s) 76, 162
BfaI CTAG 1 cut(s) 110
BfoI RGCGCY 1 cut(s) 254
BmiI GGNNCC 1 cut(s) 116
BmsI GCATC 2 cut(s) 32, 39
BpmI CTGGAG 1 cut(s) 186
Bpu10I CCTNAGC 1 cut(s) 189
BsaJI CCNNGG 1 cut(s) 27
BsaWI WCCGGW 1 cut(s) 117
Bse1I ACTGG 1 cut(s) 169
Bse3DI GCAATG 1 cut(s) 25
BseAI TCCGGA 1 cut(s) 117
BseDI CCNNGG 1 cut(s) 27
BseGI GGATG 2 cut(s) 23, 286
BseMI GCAATG 1 cut(s) 25
BseMII CTCAG 2 cut(s) 180, 201
BseNI ACTGG 1 cut(s) 169
BshFI GGCC 1 cut(s) 264
BsiHKAI GWGCWC 1 cut(s) 216
BsiSI CCGG 1 cut(s) 118
BsmAI GTCTC 2 cut(s) 76, 162
BsnI GGCC 1 cut(s) 264
Bsp1286I GDGCHC 1 cut(s) 216
Bsp13I TCCGGA 1 cut(s) 117
Bsp143I GATC 1 cut(s) 114
Bsp19I CCATGG 1 cut(s) 27
BspANI GGCC 1 cut(s) 264
BspCNI CTCAG 2 cut(s) 181, 202
BspEI TCCGGA 1 cut(s) 117
BspLI GGNNCC 1 cut(s) 116
BspPI GGATC 2 cut(s) 109, 122
BspQI GCTCTTC 2 cut(s) 221, 260
BsrDI GCAATG 1 cut(s) 25
BsrI ACTGG 1 cut(s) 169
BssECI CCNNGG 1 cut(s) 27
BssMI GATC 1 cut(s) 114
BssT1I CCWWGG 1 cut(s) 27
Bst4CI ACNGT 2 cut(s) 43, 155
Bst6I CTCTTC 2 cut(s) 221, 260
BstC8I GCNNGC 1 cut(s) 126
BstDEI CTNAG 3 cut(s) 67, 189, 210
BstDSI CCRYGG 1 cut(s) 27
BstF5I GGATG 2 cut(s) 23, 286
BstH2I RGCGCY 1 cut(s) 254
BstHHI GCGC 1 cut(s) 253
BstKTI GATC 1 cut(s) 117
BstMAI GTCTC 2 cut(s) 76, 162
BstMBI GATC 1 cut(s) 114
BstMWI GCNNNNNNNGC 1 cut(s) 211
BstNSI RCATGY 1 cut(s) 177
BstX2I RGATCY 1 cut(s) 114
BstYI RGATCY 1 cut(s) 114
BsuRI GGCC 1 cut(s) 264
BtgI CCRYGG 1 cut(s) 27
BtsCI GGATG 2 cut(s) 23, 286
BtsIMutI CAGTG 1 cut(s) 153
Cac8I GCNNGC 1 cut(s) 126
CfoI GCGC 1 cut(s) 253
Csp6I GTAC 1 cut(s) 151
CviAII CATG 2 cut(s) 28, 174
CviJI RGCY 8 cut(s) 5, 87, 109, 124, 128, 194, 214, 264
CviKI_1 RGCY 8 cut(s) 5, 87, 109, 124, 128, 194, 214, 264
CviQI GTAC 1 cut(s) 151
DdeI CTNAG 3 cut(s) 67, 189, 210
DpnI GATC 1 cut(s) 116
DpnII GATC 1 cut(s) 114
Eam1104I CTCTTC 2 cut(s) 221, 260
EarI CTCTTC 2 cut(s) 221, 260
Ecl136II GAGCTC 1 cut(s) 214
Eco130I CCWWGG 1 cut(s) 27
Eco24I GRGCYC 1 cut(s) 216
Eco47III AGCGCT 1 cut(s) 252
Eco53kI GAGCTC 1 cut(s) 214
Eco57I CTGAAG 1 cut(s) 27
EcoICRI GAGCTC 1 cut(s) 214
EcoT14I CCWWGG 1 cut(s) 27
EcoT22I ATGCAT 1 cut(s) 25
EcoT38I GRGCYC 1 cut(s) 216
ErhI CCWWGG 1 cut(s) 27
FaeI CATG 2 cut(s) 31, 177
FaiI YATR 2 cut(s) 29, 175
FatI CATG 2 cut(s) 27, 173
FokI GGATG 2 cut(s) 10, 293
FriOI GRGCYC 1 cut(s) 216
FspBI CTAG 1 cut(s) 110
GlaI GCGC 1 cut(s) 252
GsuI CTGGAG 1 cut(s) 186
HaeII RGCGCY 1 cut(s) 254
HaeIII GGCC 1 cut(s) 264
HapII CCGG 1 cut(s) 118
HhaI GCGC 1 cut(s) 253
Hin1II CATG 2 cut(s) 31, 177
Hin6I GCGC 1 cut(s) 251
HinP1I GCGC 1 cut(s) 251
HinfI GANTC 1 cut(s) 143
HpaII CCGG 1 cut(s) 118
Hpy166II GTNNAC 1 cut(s) 151
Hpy188I TCNGA 1 cut(s) 48
Hpy188III TCNNGA 5 cut(s) 37, 95, 118, 278, 297
Hpy8I GTNNAC 1 cut(s) 151
HpyAV CCTTC 1 cut(s) 98
HpyCH4III ACNGT 2 cut(s) 43, 155
HpyCH4V TGCA 2 cut(s) 23, 246
HpyF10VI GCNNNNNNNGC 1 cut(s) 211
HpyF3I CTNAG 3 cut(s) 67, 189, 210
Hsp92II CATG 2 cut(s) 31, 177
HspAI GCGC 1 cut(s) 251
Kpn2I TCCGGA 1 cut(s) 117
Kzo9I GATC 1 cut(s) 114
LguI GCTCTTC 2 cut(s) 221, 260
LpnPI CCDG 5 cut(s) 131, 138, 146, 150, 263
LweI GCATC 2 cut(s) 32, 39
MaeI CTAG 1 cut(s) 110
MalI GATC 1 cut(s) 116
MboI GATC 1 cut(s) 114
MboII GAAGA 4 cut(s) 110, 113, 208, 247
MfeI CAATTG 1 cut(s) 241
MflI RGATCY 1 cut(s) 114
MhlI GDGCHC 1 cut(s) 216
MluCI AATT 2 cut(s) 220, 241
MnlI CCTC 1 cut(s) 184
Mph1103I ATGCAT 1 cut(s) 25
MroI TCCGGA 1 cut(s) 117
MspI CCGG 1 cut(s) 118
MunI CAATTG 1 cut(s) 241
MwoI GCNNNNNNNGC 1 cut(s) 211
NcoI CCATGG 1 cut(s) 27
NdeII GATC 1 cut(s) 114
NlaIII CATG 2 cut(s) 31, 177
NlaIV GGNNCC 1 cut(s) 116
NsiI ATGCAT 1 cut(s) 25
NspI RCATGY 1 cut(s) 177
PciI ACATGT 1 cut(s) 173
PciSI GCTCTTC 2 cut(s) 221, 260
PfeI GAWTC 1 cut(s) 143
PscI ACATGT 1 cut(s) 173
Psp124BI GAGCTC 1 cut(s) 216
PspN4I GGNNCC 1 cut(s) 116
PsuI RGATCY 1 cut(s) 114
RsaI GTAC 1 cut(s) 152
RsaNI GTAC 1 cut(s) 151
SacI GAGCTC 1 cut(s) 216
SapI GCTCTTC 2 cut(s) 221, 260
Sau3AI GATC 1 cut(s) 114
SduI GDGCHC 1 cut(s) 216
SetI ASST 1 cut(s) 216
SfaNI GCATC 2 cut(s) 32, 39
Sse9I AATT 2 cut(s) 220, 241
SspMI CTAG 1 cut(s) 110
SstI GAGCTC 1 cut(s) 216
StyI CCWWGG 1 cut(s) 27
TaaI ACNGT 2 cut(s) 43, 155
TasI AATT 2 cut(s) 220, 241
TfiI GAWTC 1 cut(s) 143
TscAI CASTG 1 cut(s) 153
TspRI CASTG 1 cut(s) 153
XceI RCATGY 1 cut(s) 177
XspI CTAG 1 cut(s) 110
Zsp2I ATGCAT 1 cut(s) 25
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.