Rh5AG047800

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000334
Physical Location & Seq
Forward (+)
3987848 .. 3988807
960 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG047800.1

Sequence Viewer

Length: 294 bp
ATGGCTAAAGCAAATAGCACTGCATCCATGGTTTTGACAGTTCTGATGCTGTCTTTTCTGCTCGTGGTCTGTTTCGCTGAAAGCCGATTTCTTGAAAACGGGATCCTGAAGCCGAAGCCTGCCACCGTGCAGTGTGATTCAGTGTACGGTGTGAAAAGTGGAGACACCTGTTTTGAAATTGCTGAGGCTTTCAACTTGCCTACTAAGGTCTTCAATTCCCTCAACCCCAATCTCAATTGCACAGCCCTTTTTGTAGGCCAATGGGTTTGTCTTGATGGAGAATTCAGTTCTTAA
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

97

Amino Acids

10.51

Weight (kDa)

4.81

Isoelectric Point (pI)

21.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 49 - 90 1e-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) 97, 110
AcsI RAATTY 1 cut(s) 281
AcuI CTGAAG 1 cut(s) 128
AfaI GTAC 1 cut(s) 146
AgsI TTSAA 4 cut(s) 95, 176, 193, 214
Alw26I GTCTC 1 cut(s) 156
AlwI GGATC 2 cut(s) 97, 110
AoxI GGCC 1 cut(s) 256
ApoI RAATTY 1 cut(s) 281
ArsI GACNNNNNNTTYG 2 cut(s) 155, 187
BamHI GGATCC 1 cut(s) 102
BauI CACGAG 1 cut(s) 62
BbsI GAAGAC 1 cut(s) 202
BbvCI CCTCAGC 1 cut(s) 183
BccI CCATC 1 cut(s) 269
BcoDI GTCTC 1 cut(s) 156
BmiI GGNNCC 1 cut(s) 104
BmsI GCATC 2 cut(s) 32, 36
BpiI GAAGAC 1 cut(s) 202
Bpu10I CCTNAGC 1 cut(s) 183
BsaJI CCNNGG 1 cut(s) 27
BseDI CCNNGG 1 cut(s) 27
BseGI GGATG 1 cut(s) 23
BseMII CTCAG 1 cut(s) 174
BsgI GTGCAG 1 cut(s) 149
BshFI GGCC 1 cut(s) 258
BsmAI GTCTC 1 cut(s) 156
BsnI GGCC 1 cut(s) 258
Bsp143I GATC 1 cut(s) 102
Bsp19I CCATGG 1 cut(s) 27
BspANI GGCC 1 cut(s) 258
BspCNI CTCAG 1 cut(s) 175
BspLI GGNNCC 1 cut(s) 104
BspPI GGATC 2 cut(s) 97, 110
BssECI CCNNGG 1 cut(s) 27
BssMI GATC 1 cut(s) 102
BssSI CACGAG 1 cut(s) 62
BssT1I CCWWGG 1 cut(s) 27
Bst2BI CACGAG 1 cut(s) 62
Bst4CI ACNGT 3 cut(s) 40, 127, 149
BstC8I GCNNGC 1 cut(s) 120
BstDEI CTNAG 2 cut(s) 183, 204
BstDSI CCRYGG 1 cut(s) 27
BstF5I GGATG 1 cut(s) 23
BstKTI GATC 1 cut(s) 105
BstMAI GTCTC 1 cut(s) 156
BstMBI GATC 1 cut(s) 102
BstV2I GAAGAC 1 cut(s) 202
BstX2I RGATCY 1 cut(s) 102
BstYI RGATCY 1 cut(s) 102
BsuRI GGCC 1 cut(s) 258
BtgI CCRYGG 1 cut(s) 27
BtsCI GGATG 1 cut(s) 23
BtsI GCAGTG 2 cut(s) 18, 137
BtsIMutI CAGTG 3 cut(s) 18, 137, 147
Cac8I GCNNGC 1 cut(s) 120
Csp6I GTAC 1 cut(s) 145
CviAII CATG 1 cut(s) 28
CviJI RGCY 7 cut(s) 5, 84, 112, 118, 188, 245, 258
CviKI_1 RGCY 7 cut(s) 5, 84, 112, 118, 188, 245, 258
CviQI GTAC 1 cut(s) 145
DdeI CTNAG 2 cut(s) 183, 204
DpnI GATC 1 cut(s) 104
DpnII GATC 1 cut(s) 102
Eco130I CCWWGG 1 cut(s) 27
Eco57I CTGAAG 1 cut(s) 128
EcoRI GAATTC 1 cut(s) 281
EcoT14I CCWWGG 1 cut(s) 27
ErhI CCWWGG 1 cut(s) 27
FaeI CATG 1 cut(s) 31
FaiI YATR 1 cut(s) 29
FatI CATG 1 cut(s) 27
FokI GGATG 1 cut(s) 10
HaeIII GGCC 1 cut(s) 258
Hin1II CATG 1 cut(s) 31
HinfI GANTC 1 cut(s) 137
Hpy166II GTNNAC 1 cut(s) 145
Hpy188I TCNGA 1 cut(s) 45
Hpy188III TCNNGA 3 cut(s) 92, 106, 272
Hpy8I GTNNAC 1 cut(s) 145
HpyCH4III ACNGT 3 cut(s) 40, 127, 149
HpyCH4V TGCA 3 cut(s) 23, 130, 240
HpyF3I CTNAG 2 cut(s) 183, 204
Hsp92II CATG 1 cut(s) 31
Kzo9I GATC 1 cut(s) 102
LpnPI CCDG 3 cut(s) 119, 132, 181
LweI GCATC 2 cut(s) 32, 36
MalI GATC 1 cut(s) 104
MboI GATC 1 cut(s) 102
MboII GAAGA 1 cut(s) 202
MfeI CAATTG 1 cut(s) 235
MflI RGATCY 1 cut(s) 102
MluCI AATT 4 cut(s) 177, 214, 235, 281
MnlI CCTC 2 cut(s) 178, 230
MseI TTAA 1 cut(s) 292
MunI CAATTG 1 cut(s) 235
NcoI CCATGG 1 cut(s) 27
NdeII GATC 1 cut(s) 102
NlaIII CATG 1 cut(s) 31
NlaIV GGNNCC 1 cut(s) 104
PfeI GAWTC 1 cut(s) 137
PspN4I GGNNCC 1 cut(s) 104
PsuI RGATCY 1 cut(s) 102
RsaI GTAC 1 cut(s) 146
RsaNI GTAC 1 cut(s) 145
SaqAI TTAA 1 cut(s) 292
Sau3AI GATC 1 cut(s) 102
SetI ASST 2 cut(s) 170, 210
SfaNI GCATC 2 cut(s) 32, 36
Sse9I AATT 4 cut(s) 177, 214, 235, 281
StyI CCWWGG 1 cut(s) 27
TaaI ACNGT 3 cut(s) 40, 127, 149
TasI AATT 4 cut(s) 177, 214, 235, 281
TfiI GAWTC 1 cut(s) 137
Tru1I TTAA 1 cut(s) 292
Tru9I TTAA 1 cut(s) 292
TscAI CASTG 3 cut(s) 25, 137, 147
TspRI CASTG 3 cut(s) 25, 137, 147
XapI RAATTY 1 cut(s) 281
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.