Rh5AG047700

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000334
Physical Location & Seq
Forward (+)
3986334 .. 3987303
970 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG047700.1

Sequence Viewer

Length: 291 bp
ATGGCTAAAGCTAGCAATTCATCCATCGTTATGAACTTGACAATTCTGATGCTGTCTTTTCTGCTTGTGGTCTCTTTCGCTGAAAGCCGATTTCTTGAAAAAGGGATCTTGAAGCCTGCCACCTTGAAATGTGATTCAGTGTACGGTGTGAAAACTGGAGACACCTGTTTTGAAATCGCTGAGGCTTTCAACTTGTCTGCTGAGTTCTTTGATTCCATCAATCCCAATCTCAATTGCAAAACCCTCTTCGTAGGCCAATGGGTTTGTCTTGATGGAGAATTAAGTTTTTAA
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

96

Amino Acids

10.56

Weight (kDa)

4.69

Isoelectric Point (pI)

21.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 48 - 89 8.5e-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 1 cut(s) 113
AfaI GTAC 1 cut(s) 143
AgsI TTSAA 5 cut(s) 98, 112, 127, 173, 190
AluBI AGCT 1 cut(s) 11
AluI AGCT 1 cut(s) 11
Alw26I GTCTC 2 cut(s) 76, 153
AlwI GGATC 1 cut(s) 113
AoxI GGCC 1 cut(s) 253
ArsI GACNNNNNNTTYG 2 cut(s) 152, 184
AsuNHI GCTAGC 1 cut(s) 11
BbvCI CCTCAGC 1 cut(s) 180
BccI CCATC 3 cut(s) 32, 224, 266
BcoDI GTCTC 2 cut(s) 76, 153
BfaI CTAG 1 cut(s) 12
BmsI GCATC 1 cut(s) 39
BmtI GCTAGC 1 cut(s) 15
BpmI CTGGAG 1 cut(s) 177
Bpu10I CCTNAGC 1 cut(s) 180
BsaI GGTCTC 1 cut(s) 76
Bse1I ACTGG 1 cut(s) 160
BseGI GGATG 1 cut(s) 20
BseMII CTCAG 2 cut(s) 171, 192
BseNI ACTGG 1 cut(s) 160
BshFI GGCC 1 cut(s) 255
BsmAI GTCTC 2 cut(s) 76, 153
BsnI GGCC 1 cut(s) 255
Bso31I GGTCTC 1 cut(s) 76
Bsp143I GATC 1 cut(s) 105
BspANI GGCC 1 cut(s) 255
BspCNI CTCAG 2 cut(s) 172, 193
BspOI GCTAGC 1 cut(s) 15
BspPI GGATC 1 cut(s) 113
BspTNI GGTCTC 1 cut(s) 76
BsrI ACTGG 1 cut(s) 160
BssMI GATC 1 cut(s) 105
Bst4CI ACNGT 1 cut(s) 146
Bst6I CTCTTC 1 cut(s) 251
BstC8I GCNNGC 2 cut(s) 13, 117
BstDEI CTNAG 2 cut(s) 180, 201
BstF5I GGATG 1 cut(s) 20
BstKTI GATC 1 cut(s) 108
BstMAI GTCTC 2 cut(s) 76, 153
BstMBI GATC 1 cut(s) 105
BstX2I RGATCY 1 cut(s) 105
BstYI RGATCY 1 cut(s) 105
BsuRI GGCC 1 cut(s) 255
BtsCI GGATG 1 cut(s) 20
BtsIMutI CAGTG 1 cut(s) 144
Cac8I GCNNGC 2 cut(s) 13, 117
Csp6I GTAC 1 cut(s) 142
CviJI RGCY 6 cut(s) 5, 11, 87, 115, 185, 255
CviKI_1 RGCY 6 cut(s) 5, 11, 87, 115, 185, 255
CviQI GTAC 1 cut(s) 142
DdeI CTNAG 2 cut(s) 180, 201
DpnI GATC 1 cut(s) 107
DpnII GATC 1 cut(s) 105
Eam1104I CTCTTC 1 cut(s) 251
EarI CTCTTC 1 cut(s) 251
Eco31I GGTCTC 1 cut(s) 76
FaiI YATR 1 cut(s) 32
FokI GGATG 1 cut(s) 7
FspBI CTAG 1 cut(s) 12
GsuI CTGGAG 1 cut(s) 177
HaeIII GGCC 1 cut(s) 255
HinfI GANTC 2 cut(s) 134, 212
Hpy166II GTNNAC 1 cut(s) 142
Hpy188I TCNGA 1 cut(s) 48
Hpy188III TCNNGA 3 cut(s) 95, 109, 269
Hpy8I GTNNAC 1 cut(s) 142
HpyCH4III ACNGT 1 cut(s) 146
HpyCH4V TGCA 1 cut(s) 237
HpyF3I CTNAG 2 cut(s) 180, 201
Kzo9I GATC 1 cut(s) 105
LpnPI CCDG 3 cut(s) 129, 141, 178
LweI GCATC 1 cut(s) 39
MaeI CTAG 1 cut(s) 12
MalI GATC 1 cut(s) 107
MboI GATC 1 cut(s) 105
MboII GAAGA 1 cut(s) 238
MfeI CAATTG 1 cut(s) 232
MflI RGATCY 1 cut(s) 105
MluCI AATT 4 cut(s) 16, 42, 232, 278
MnlI CCTC 2 cut(s) 175, 254
MseI TTAA 2 cut(s) 281, 289
MslI CAYNNNNRTG 1 cut(s) 29
MunI CAATTG 1 cut(s) 232
NdeII GATC 1 cut(s) 105
NheI GCTAGC 1 cut(s) 11
PfeI GAWTC 2 cut(s) 134, 212
PsuI RGATCY 1 cut(s) 105
RsaI GTAC 1 cut(s) 143
RsaNI GTAC 1 cut(s) 142
RseI CAYNNNNRTG 1 cut(s) 29
SaqAI TTAA 2 cut(s) 281, 289
Sau3AI GATC 1 cut(s) 105
SetI ASST 3 cut(s) 13, 125, 167
SfaNI GCATC 1 cut(s) 39
SmiMI CAYNNNNRTG 1 cut(s) 29
Sse9I AATT 4 cut(s) 16, 42, 232, 278
SspMI CTAG 1 cut(s) 12
TaaI ACNGT 1 cut(s) 146
TasI AATT 4 cut(s) 16, 42, 232, 278
TfiI GAWTC 2 cut(s) 134, 212
Tru1I TTAA 2 cut(s) 281, 289
Tru9I TTAA 2 cut(s) 281, 289
TscAI CASTG 1 cut(s) 144
TspDTI ATGAA 2 cut(s) 9, 47
TspRI CASTG 1 cut(s) 144
XspI CTAG 1 cut(s) 12
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.