FvH4_3g39481

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0000334
Physical Location & Seq
Reverse (-)
33584371 .. 33584737
367 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g39481.t1

Sequence Viewer

Length: 279 bp
ATGGCTTTGATTATGTCTAACAACAAGATGAGAATCTTTAGTGTGGCTCTTTTTCTCTGTCTTTTCCTCGTCTTCTCCTCCGCCGAGAGCAGAAAACTCAGCAATGGGAATGGGAAACCAAAGTATGACACTGTTTATGGGGTAAAACCTACAAACCAATGCTCAGGTATCATGCAGGCGTTTGATCTGAGTGCTGATGAATTCTTCGCAATCAACCCTAATCTCAATTGCAATGCTATCTTTGTGGGTCAATGGATTTGTATCAGTGGATCAGCATAA
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

93

Amino Acids

10.08

Weight (kDa)

8.43

Isoelectric Point (pI)

14.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 48 - 88 9.8e-06 LysM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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

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Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 81
AclWI GGATC 1 cut(s) 277
AcsI RAATTY 1 cut(s) 200
AlwI GGATC 1 cut(s) 277
ApoI RAATTY 1 cut(s) 200
BbsI GAAGAC 1 cut(s) 64
BpiI GAAGAC 1 cut(s) 64
Bpu10I CCTNAGC 1 cut(s) 163
BsaBI GATNNNNATC 2 cut(s) 32, 260
Bse3DI GCAATG 2 cut(s) 109, 238
Bse8I GATNNNNATC 2 cut(s) 32, 260
BseJI GATNNNNATC 2 cut(s) 32, 260
BseMI GCAATG 2 cut(s) 109, 238
BseMII CTCAG 3 cut(s) 112, 177, 179
BseRI GAGGAG 1 cut(s) 67
Bsp143I GATC 2 cut(s) 184, 269
BspACI CCGC 1 cut(s) 81
BspCNI CTCAG 3 cut(s) 111, 176, 180
BspPI GGATC 1 cut(s) 277
BsrDI GCAATG 2 cut(s) 109, 238
BssMI GATC 2 cut(s) 184, 269
Bst4CI ACNGT 1 cut(s) 133
BstC8I GCNNGC 1 cut(s) 177
BstDEI CTNAG 3 cut(s) 98, 163, 188
BstKTI GATC 2 cut(s) 187, 272
BstMBI GATC 2 cut(s) 184, 269
BstV2I GAAGAC 1 cut(s) 64
BtsIMutI CAGTG 2 cut(s) 129, 271
Cac8I GCNNGC 1 cut(s) 177
CviAII CATG 1 cut(s) 172
CviJI RGCY 2 cut(s) 5, 47
CviKI_1 RGCY 2 cut(s) 5, 47
DdeI CTNAG 3 cut(s) 98, 163, 188
DpnI GATC 2 cut(s) 186, 271
DpnII GATC 2 cut(s) 184, 269
EciI GGCGGA 1 cut(s) 70
EcoRI GAATTC 1 cut(s) 200
FaeI CATG 1 cut(s) 175
FaiI YATR 5 cut(s) 14, 126, 138, 173, 277
FatI CATG 1 cut(s) 171
Hin1II CATG 1 cut(s) 175
HinfI GANTC 1 cut(s) 33
Hpy188I TCNGA 1 cut(s) 189
HpyCH4III ACNGT 1 cut(s) 133
HpyCH4V TGCA 2 cut(s) 175, 231
HpyF3I CTNAG 3 cut(s) 98, 163, 188
Hsp92II CATG 1 cut(s) 175
Kzo9I GATC 2 cut(s) 184, 269
LpnPI CCDG 2 cut(s) 150, 161
MalI GATC 2 cut(s) 186, 271
MboI GATC 2 cut(s) 184, 269
MboII GAAGA 2 cut(s) 64, 196
MfeI CAATTG 1 cut(s) 226
MluCI AATT 2 cut(s) 200, 226
MnlI CCTC 2 cut(s) 77, 88
MunI CAATTG 1 cut(s) 226
NdeII GATC 2 cut(s) 184, 269
NlaIII CATG 1 cut(s) 175
NmeAIII GCCGAG 1 cut(s) 109
PfeI GAWTC 1 cut(s) 33
Sau3AI GATC 2 cut(s) 184, 269
SetI ASST 2 cut(s) 151, 169
SgeI CNNG 6 cut(s) 37, 80, 97, 177, 184, 188
Sse9I AATT 2 cut(s) 200, 226
SsiI CCGC 1 cut(s) 81
TaaI ACNGT 1 cut(s) 133
TasI AATT 2 cut(s) 200, 226
TfiI GAWTC 1 cut(s) 33
TscAI CASTG 2 cut(s) 136, 271
TspDTI ATGAA 1 cut(s) 213
TspRI CASTG 2 cut(s) 136, 271
XapI RAATTY 1 cut(s) 200
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.