Rroxscaffold_1G00069850

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000334
Physical Location & Seq
Reverse (-)
90718813 .. 90723626
4814 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00069850.1

Sequence Viewer

Length: 267 bp
ATGAACTTGGCAATTCTGATGCTGTCTTTTCTGCTTGTGGTCTCTTTCGCTGAAAGCCGATTTCTTGAAAACGGGATCCTGAAGCCGAAGCCTGCCACCGTGCAGTGTGATTCAGTTTACGGTGTGAAAAGTGGAGACACCTGTTTTGAAATTGCTGAGGCTTTCAACTTGCCTACTAAGGTCTTCAATTCCATCAACCCCAATCTCAATTGCACAGCCCTTTTCGTAGGCCAATGGGTTTGTCTTCATGGAGAATTCAGTTCTTAA
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

88

Amino Acids

9.65

Weight (kDa)

5.09

Isoelectric Point (pI)

22.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 40 - 81 3.2e-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)
AclWI GGATC 2 cut(s) 70, 83
AcsI RAATTY 1 cut(s) 254
AcuI CTGAAG 1 cut(s) 101
AgsI TTSAA 4 cut(s) 68, 149, 166, 187
Alw26I GTCTC 2 cut(s) 46, 129
AlwI GGATC 2 cut(s) 70, 83
AoxI GGCC 1 cut(s) 229
ApoI RAATTY 1 cut(s) 254
ArsI GACNNNNNNTTYG 2 cut(s) 128, 160
BamHI GGATCC 1 cut(s) 75
BbsI GAAGAC 2 cut(s) 175, 236
BbvCI CCTCAGC 1 cut(s) 156
BccI CCATC 1 cut(s) 200
BcoDI GTCTC 2 cut(s) 46, 129
BmiI GGNNCC 1 cut(s) 77
BmsI GCATC 1 cut(s) 9
BpiI GAAGAC 2 cut(s) 175, 236
Bpu10I CCTNAGC 1 cut(s) 156
BsaI GGTCTC 1 cut(s) 46
BseMII CTCAG 1 cut(s) 147
BsgI GTGCAG 1 cut(s) 122
BshFI GGCC 1 cut(s) 231
BsmAI GTCTC 2 cut(s) 46, 129
BsnI GGCC 1 cut(s) 231
Bso31I GGTCTC 1 cut(s) 46
Bsp143I GATC 1 cut(s) 75
BspANI GGCC 1 cut(s) 231
BspCNI CTCAG 1 cut(s) 148
BspLI GGNNCC 1 cut(s) 77
BspPI GGATC 2 cut(s) 70, 83
BspTNI GGTCTC 1 cut(s) 46
BssMI GATC 1 cut(s) 75
Bst4CI ACNGT 2 cut(s) 100, 122
BstC8I GCNNGC 1 cut(s) 93
BstDEI CTNAG 2 cut(s) 156, 177
BstKTI GATC 1 cut(s) 78
BstMAI GTCTC 2 cut(s) 46, 129
BstMBI GATC 1 cut(s) 75
BstV2I GAAGAC 2 cut(s) 175, 236
BstX2I RGATCY 1 cut(s) 75
BstYI RGATCY 1 cut(s) 75
BsuRI GGCC 1 cut(s) 231
BtsI GCAGTG 1 cut(s) 110
BtsIMutI CAGTG 1 cut(s) 110
Cac8I GCNNGC 1 cut(s) 93
CviAII CATG 1 cut(s) 248
CviJI RGCY 6 cut(s) 57, 85, 91, 161, 218, 231
CviKI_1 RGCY 6 cut(s) 57, 85, 91, 161, 218, 231
DdeI CTNAG 2 cut(s) 156, 177
DpnI GATC 1 cut(s) 77
DpnII GATC 1 cut(s) 75
Eco31I GGTCTC 1 cut(s) 46
Eco57I CTGAAG 1 cut(s) 101
EcoRI GAATTC 1 cut(s) 254
FaeI CATG 1 cut(s) 251
FaiI YATR 1 cut(s) 249
FatI CATG 1 cut(s) 247
HaeIII GGCC 1 cut(s) 231
Hin1II CATG 1 cut(s) 251
HinfI GANTC 1 cut(s) 110
Hpy166II GTNNAC 1 cut(s) 118
Hpy188I TCNGA 1 cut(s) 18
Hpy188III TCNNGA 2 cut(s) 65, 79
Hpy8I GTNNAC 1 cut(s) 118
HpyCH4III ACNGT 2 cut(s) 100, 122
HpyCH4V TGCA 2 cut(s) 103, 213
HpyF3I CTNAG 2 cut(s) 156, 177
Hsp92II CATG 1 cut(s) 251
Kzo9I GATC 1 cut(s) 75
LpnPI CCDG 3 cut(s) 92, 105, 154
LweI GCATC 1 cut(s) 9
MalI GATC 1 cut(s) 77
MboI GATC 1 cut(s) 75
MboII GAAGA 2 cut(s) 175, 236
MfeI CAATTG 1 cut(s) 208
MflI RGATCY 1 cut(s) 75
MluCI AATT 5 cut(s) 12, 150, 187, 208, 254
MnlI CCTC 1 cut(s) 151
MseI TTAA 1 cut(s) 265
MunI CAATTG 1 cut(s) 208
NdeII GATC 1 cut(s) 75
NlaIII CATG 1 cut(s) 251
NlaIV GGNNCC 1 cut(s) 77
PfeI GAWTC 1 cut(s) 110
PspN4I GGNNCC 1 cut(s) 77
PsuI RGATCY 1 cut(s) 75
SaqAI TTAA 1 cut(s) 265
Sau3AI GATC 1 cut(s) 75
SetI ASST 2 cut(s) 143, 183
SfaNI GCATC 1 cut(s) 9
Sse9I AATT 5 cut(s) 12, 150, 187, 208, 254
TaaI ACNGT 2 cut(s) 100, 122
TasI AATT 5 cut(s) 12, 150, 187, 208, 254
TfiI GAWTC 1 cut(s) 110
Tru1I TTAA 1 cut(s) 265
Tru9I TTAA 1 cut(s) 265
TscAI CASTG 1 cut(s) 110
TspDTI ATGAA 2 cut(s) 17, 236
TspRI CASTG 1 cut(s) 110
XapI RAATTY 1 cut(s) 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.