Rh2DG580000

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0000334
Physical Location & Seq
Forward (+)
81087444 .. 81103825
16382 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG580000.1

Sequence Viewer

Length: 276 bp
ATGGCTAGGCCTAGCTTGATTCTACTTCTAGTTGTCTCTCTTCTTGTCATAATTTCAGTAGCTGAGAGTAAACGACTAGCTGTAGGATTTGCGGAGAAGAAGACTTCCGCGCTGGTCTGTAATTCTGTTTATGGTGCAGAGGAAGGTGATACTTGCACTAGTGTCGCTCAAACGTTCAAACTGAGTCTCGATGCCTTCCTTTCCATTAACCCTAATATCAATTGCGACAGCTTCTTTGTGGGTCAATGGCTCTGTACTGATGGTGCTCCGAAGTGA
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

91

Amino Acids

9.7

Weight (kDa)

5.13

Isoelectric Point (pI)

37.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 48 - 85 1.2e-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)
AccII CGCG 1 cut(s) 110
AciI CCGC 2 cut(s) 92, 108
AclI AACGTT 1 cut(s) 173
AfaI GTAC 1 cut(s) 256
AgsI TTSAA 1 cut(s) 178
AhlI ACTAGT 1 cut(s) 158
AluBI AGCT 4 cut(s) 15, 62, 80, 231
AluI AGCT 4 cut(s) 15, 62, 80, 231
Alw21I GWGCWC 1 cut(s) 268
Alw26I GTCTC 2 cut(s) 40, 191
AlwNI CAGNNNCTG 1 cut(s) 62
AoxI GGCC 1 cut(s) 8
ArsI GACNNNNNNTTYG 2 cut(s) 218, 250
AspLEI GCGC 1 cut(s) 112
AsuHPI GGTGA 1 cut(s) 158
BbsI GAAGAC 1 cut(s) 107
Bbv12I GWGCWC 1 cut(s) 268
BccI CCATC 1 cut(s) 254
BcgI CGANNNNNNTGC 2 cut(s) 145, 179
BcoDI GTCTC 2 cut(s) 40, 191
BcuI ACTAGT 1 cut(s) 158
BfaI CTAG 5 cut(s) 6, 12, 29, 77, 159
BfmI CTRYAG 1 cut(s) 81
BmsI GCATC 1 cut(s) 181
BpiI GAAGAC 1 cut(s) 107
BseMII CTCAG 2 cut(s) 54, 173
BsgI GTGCAG 1 cut(s) 156
Bsh1236I CGCG 1 cut(s) 110
BshFI GGCC 1 cut(s) 10
BsiHKAI GWGCWC 1 cut(s) 268
BsmAI GTCTC 2 cut(s) 40, 191
BsnI GGCC 1 cut(s) 10
Bsp1286I GDGCHC 1 cut(s) 268
BspACI CCGC 2 cut(s) 92, 108
BspANI GGCC 1 cut(s) 10
BspCNI CTCAG 2 cut(s) 55, 174
BspFNI CGCG 1 cut(s) 110
Bst6I CTCTTC 1 cut(s) 45
BstDEI CTNAG 2 cut(s) 63, 182
BstFNI CGCG 1 cut(s) 110
BstHHI GCGC 1 cut(s) 112
BstMAI GTCTC 2 cut(s) 40, 191
BstSFI CTRYAG 1 cut(s) 81
BstUI CGCG 1 cut(s) 110
BstV2I GAAGAC 1 cut(s) 107
BsuRI GGCC 1 cut(s) 10
CaiI CAGNNNCTG 1 cut(s) 62
CfoI GCGC 1 cut(s) 112
Csp6I GTAC 1 cut(s) 255
CviJI RGCY 7 cut(s) 5, 10, 15, 62, 80, 231, 250
CviKI_1 RGCY 7 cut(s) 5, 10, 15, 62, 80, 231, 250
CviQI GTAC 1 cut(s) 255
DdeI CTNAG 2 cut(s) 63, 182
Eam1104I CTCTTC 1 cut(s) 45
EarI CTCTTC 1 cut(s) 45
Eco147I AGGCCT 1 cut(s) 10
FaiI YATR 2 cut(s) 50, 132
FspBI CTAG 5 cut(s) 6, 12, 29, 77, 159
GlaI GCGC 1 cut(s) 111
HaeIII GGCC 1 cut(s) 10
HhaI GCGC 1 cut(s) 112
Hin6I GCGC 1 cut(s) 110
HinP1I GCGC 1 cut(s) 110
HinfI GANTC 2 cut(s) 19, 184
HphI GGTGA 1 cut(s) 158
Hpy166II GTNNAC 1 cut(s) 71
Hpy188I TCNGA 1 cut(s) 270
Hpy188III TCNNGA 1 cut(s) 188
Hpy8I GTNNAC 1 cut(s) 71
HpyAV CCTTC 2 cut(s) 137, 205
HpyCH4IV ACGT 1 cut(s) 173
HpyCH4V TGCA 2 cut(s) 137, 156
HpyF3I CTNAG 2 cut(s) 63, 182
HpySE526I ACGT 1 cut(s) 173
HspAI GCGC 1 cut(s) 110
LmnI GCTCC 1 cut(s) 271
LpnPI CCDG 1 cut(s) 98
LweI GCATC 1 cut(s) 181
MaeI CTAG 5 cut(s) 6, 12, 29, 77, 159
MaeII ACGT 1 cut(s) 173
MboII GAAGA 3 cut(s) 32, 109, 112
MfeI CAATTG 1 cut(s) 220
MhlI GDGCHC 1 cut(s) 268
MluCI AATT 3 cut(s) 51, 121, 220
MlyI GAGTC 1 cut(s) 193
MnlI CCTC 1 cut(s) 133
MseI TTAA 1 cut(s) 207
MunI CAATTG 1 cut(s) 220
MvnI CGCG 1 cut(s) 110
PceI AGGCCT 1 cut(s) 10
PfeI GAWTC 1 cut(s) 19
PleI GAGTC 1 cut(s) 192
PpsI GAGTC 1 cut(s) 192
Psp1406I AACGTT 1 cut(s) 173
PstNI CAGNNNCTG 1 cut(s) 62
RsaI GTAC 1 cut(s) 256
RsaNI GTAC 1 cut(s) 255
SaqAI TTAA 1 cut(s) 207
SchI GAGTC 1 cut(s) 193
SduI GDGCHC 1 cut(s) 268
SetI ASST 6 cut(s) 17, 64, 82, 148, 176, 233
SfaNI GCATC 1 cut(s) 181
SfcI CTRYAG 1 cut(s) 81
SpeI ACTAGT 1 cut(s) 158
Sse9I AATT 3 cut(s) 51, 121, 220
SseBI AGGCCT 1 cut(s) 10
SsiI CCGC 2 cut(s) 92, 108
SspMI CTAG 5 cut(s) 6, 12, 29, 77, 159
StuI AGGCCT 1 cut(s) 10
TaiI ACGT 1 cut(s) 176
TaqI TCGA 1 cut(s) 189
TasI AATT 3 cut(s) 51, 121, 220
TatI WGTACW 1 cut(s) 254
TfiI GAWTC 1 cut(s) 19
Tru1I TTAA 1 cut(s) 207
Tru9I TTAA 1 cut(s) 207
XspI CTAG 5 cut(s) 6, 12, 29, 77, 159
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.