Rroxscaffold_2G00088670

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000334
Physical Location & Seq
Reverse (-)
10582170 .. 10582581
412 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00088670.1

Sequence Viewer

Length: 273 bp
ATGGCTAAGCTTAACTTGATTGTACTTATAGTTGTCTCTCTTCTTGTCATCATTTCAGTAGCTGAGAGTAAACGACTTGCTGTTGGACTTGCAAAGAGGGCTCCGACCCTTGTTTGTAATTCCGTTTATGGTGCAGCGGAAGGTGATACTTGCGGTAGTGTCGCTCAAATGTTCAATCTGAGTCTCAAATCCTTCCTTTCCATCAACCCTAACATCAACTGCAGGAGCTTTTTTGTGGGTCAATGGCTATGTATTGATGGTGCTACGAAGTGA
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

90

Amino Acids

9.57

Weight (kDa)

9.13

Isoelectric Point (pI)

22.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 47 - 85 2e-07 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)
AciI CCGC 2 cut(s) 137, 153
AfaI GTAC 1 cut(s) 24
AgsI TTSAA 1 cut(s) 175
AluBI AGCT 3 cut(s) 10, 62, 228
AluI AGCT 3 cut(s) 10, 62, 228
Alw26I GTCTC 2 cut(s) 40, 188
AlwNI CAGNNNCTG 1 cut(s) 62
ApeKI GCWGC 1 cut(s) 134
AsuHPI GGTGA 1 cut(s) 155
BanII GRGCYC 1 cut(s) 103
BbvI GCAGC 1 cut(s) 146
BccI CCATC 2 cut(s) 209, 251
BcoDI GTCTC 2 cut(s) 40, 188
BfmI CTRYAG 1 cut(s) 220
BisI GCNGC 1 cut(s) 135
BlpI GCTNAGC 1 cut(s) 6
BlsI GCNGC 1 cut(s) 136
BmiI GGNNCC 1 cut(s) 102
Bpu1102I GCTNAGC 1 cut(s) 6
BseMII CTCAG 2 cut(s) 54, 170
BseXI GCAGC 1 cut(s) 146
BsgI GTGCAG 1 cut(s) 153
BsmAI GTCTC 2 cut(s) 40, 188
Bsp1286I GDGCHC 1 cut(s) 103
Bsp1720I GCTNAGC 1 cut(s) 6
BspACI CCGC 2 cut(s) 137, 153
BspCNI CTCAG 2 cut(s) 55, 171
BspLI GGNNCC 1 cut(s) 102
BspMAI CTGCAG 1 cut(s) 224
Bst6I CTCTTC 1 cut(s) 45
BstDEI CTNAG 3 cut(s) 6, 63, 179
BstMAI GTCTC 2 cut(s) 40, 188
BstMWI GCNNNNNNNGC 1 cut(s) 98
BstSFI CTRYAG 1 cut(s) 220
BstV1I GCAGC 1 cut(s) 146
CaiI CAGNNNCTG 1 cut(s) 62
Csp6I GTAC 1 cut(s) 23
CviJI RGCY 6 cut(s) 5, 10, 62, 101, 228, 247
CviKI_1 RGCY 6 cut(s) 5, 10, 62, 101, 228, 247
CviQI GTAC 1 cut(s) 23
DdeI CTNAG 3 cut(s) 6, 63, 179
Eam1104I CTCTTC 1 cut(s) 45
EarI CTCTTC 1 cut(s) 45
Eco24I GRGCYC 1 cut(s) 103
EcoT38I GRGCYC 1 cut(s) 103
FaiI YATR 3 cut(s) 29, 129, 250
FalI AAGNNNNNCTT 1 cut(s) 31
Fnu4HI GCNGC 1 cut(s) 135
FriOI GRGCYC 1 cut(s) 103
Fsp4HI GCNGC 1 cut(s) 135
GluI GCNGC 1 cut(s) 135
HindIII AAGCTT 1 cut(s) 8
HinfI GANTC 1 cut(s) 181
HphI GGTGA 1 cut(s) 155
Hpy166II GTNNAC 1 cut(s) 71
Hpy188I TCNGA 2 cut(s) 105, 180
Hpy8I GTNNAC 1 cut(s) 71
HpyAV CCTTC 2 cut(s) 134, 202
HpyCH4V TGCA 3 cut(s) 92, 134, 222
HpyF10VI GCNNNNNNNGC 1 cut(s) 98
HpyF3I CTNAG 3 cut(s) 6, 63, 179
LmnI GCTCC 2 cut(s) 106, 225
LpnPI CCDG 1 cut(s) 208
Lsp1109I GCAGC 1 cut(s) 146
MboII GAAGA 1 cut(s) 32
MhlI GDGCHC 1 cut(s) 103
MluCI AATT 1 cut(s) 118
MlyI GAGTC 1 cut(s) 190
MmeI TCCRAC 2 cut(s) 64, 128
MnlI CCTC 1 cut(s) 90
MseI TTAA 1 cut(s) 12
MspA1I CMGCKG 1 cut(s) 137
MwoI GCNNNNNNNGC 1 cut(s) 98
NlaIV GGNNCC 1 cut(s) 102
PkrI GCNGC 1 cut(s) 136
PleI GAGTC 1 cut(s) 189
PpsI GAGTC 1 cut(s) 189
PspN4I GGNNCC 1 cut(s) 102
PstI CTGCAG 1 cut(s) 224
PstNI CAGNNNCTG 1 cut(s) 62
RsaI GTAC 1 cut(s) 24
RsaNI GTAC 1 cut(s) 23
SaqAI TTAA 1 cut(s) 12
SatI GCNGC 1 cut(s) 135
SchI GAGTC 1 cut(s) 190
SduI GDGCHC 1 cut(s) 103
SetI ASST 4 cut(s) 12, 64, 145, 230
SfcI CTRYAG 1 cut(s) 220
SgeI CNNG 7 cut(s) 28, 56, 89, 101, 122, 162, 235
Sse9I AATT 1 cut(s) 118
SsiI CCGC 2 cut(s) 137, 153
TasI AATT 1 cut(s) 118
TatI WGTACW 1 cut(s) 22
Tru1I TTAA 1 cut(s) 12
Tru9I TTAA 1 cut(s) 12
TseI GCWGC 1 cut(s) 134
TspGWI ACGGA 1 cut(s) 112
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.