Rroxscaffold_1G00069840

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000334
Physical Location & Seq
Reverse (-)
90716844 .. 90717450
607 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00069840.1

Sequence Viewer

Length: 267 bp
ATGGTCATGAACTTGACAGTTCTGATGGTGTCTTTTCTCCTTCTAGTCTCTTTGGCTGAAAGCCAATTTTTCGGTAATCCATTCTCTCCCTCCCCTCCCACCCTAGAATGTGATTCAGTGTATGGTGTAAAAAGTGGAGACACATGCTTTGAAGTGGCTAAGACGTTCAAACTCACTACTGCATTGTTTGAAACACTCAACCCCAATCTCAATTGCTCAGCTCTCTTCATAGGTCAATGGCTTTGCCTTGATGGAAAATTAACTTAA
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

9.62

Weight (kDa)

4.44

Isoelectric Point (pI)

33.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 41 - 83 2.3e-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)
AgsI TTSAA 3 cut(s) 152, 169, 191
AluBI AGCT 1 cut(s) 221
AluI AGCT 1 cut(s) 221
Alw26I GTCTC 2 cut(s) 52, 132
ArsI GACNNNNNNTTYG 2 cut(s) 131, 163
BccI CCATC 2 cut(s) 19, 245
BcoDI GTCTC 2 cut(s) 52, 132
BfaI CTAG 2 cut(s) 44, 104
BlpI GCTNAGC 1 cut(s) 217
Bpu1102I GCTNAGC 1 cut(s) 217
BseMII CTCAG 1 cut(s) 231
BsmAI GTCTC 2 cut(s) 52, 132
Bsp1720I GCTNAGC 1 cut(s) 217
BspCNI CTCAG 1 cut(s) 230
BspHI TCATGA 1 cut(s) 6
Bst4CI ACNGT 1 cut(s) 19
Bst6I CTCTTC 1 cut(s) 230
BstDEI CTNAG 2 cut(s) 159, 217
BstMAI GTCTC 2 cut(s) 52, 132
BstNSI RCATGY 1 cut(s) 147
BtsIMutI CAGTG 1 cut(s) 123
CciI TCATGA 1 cut(s) 6
CviAII CATG 2 cut(s) 7, 144
CviJI RGCY 5 cut(s) 56, 63, 158, 221, 241
CviKI_1 RGCY 5 cut(s) 56, 63, 158, 221, 241
DdeI CTNAG 2 cut(s) 159, 217
Eam1104I CTCTTC 1 cut(s) 230
EarI CTCTTC 1 cut(s) 230
FaeI CATG 2 cut(s) 10, 147
FaiI YATR 4 cut(s) 8, 123, 145, 230
FatI CATG 2 cut(s) 6, 143
FspBI CTAG 2 cut(s) 44, 104
Hin1II CATG 2 cut(s) 10, 147
HinfI GANTC 1 cut(s) 113
Hpy188I TCNGA 1 cut(s) 24
Hpy188III TCNNGA 1 cut(s) 7
HpyAV CCTTC 1 cut(s) 50
HpyCH4III ACNGT 1 cut(s) 19
HpyCH4IV ACGT 1 cut(s) 164
HpyCH4V TGCA 1 cut(s) 182
HpyF3I CTNAG 2 cut(s) 159, 217
HpySE526I ACGT 1 cut(s) 164
Hsp92II CATG 2 cut(s) 10, 147
MaeI CTAG 2 cut(s) 44, 104
MaeII ACGT 1 cut(s) 164
MboII GAAGA 1 cut(s) 217
MfeI CAATTG 1 cut(s) 211
MluCI AATT 3 cut(s) 65, 211, 257
MnlI CCTC 2 cut(s) 100, 105
MseI TTAA 2 cut(s) 260, 265
MunI CAATTG 1 cut(s) 211
NlaIII CATG 2 cut(s) 10, 147
NspI RCATGY 1 cut(s) 147
PagI TCATGA 1 cut(s) 6
PfeI GAWTC 1 cut(s) 113
SaqAI TTAA 2 cut(s) 260, 265
SetI ASST 3 cut(s) 167, 223, 235
SgeI CNNG 6 cut(s) 19, 25, 56, 116, 156, 260
Sse9I AATT 3 cut(s) 65, 211, 257
SspMI CTAG 2 cut(s) 44, 104
TaaI ACNGT 1 cut(s) 19
TaiI ACGT 1 cut(s) 167
TasI AATT 3 cut(s) 65, 211, 257
TfiI GAWTC 1 cut(s) 113
Tru1I TTAA 2 cut(s) 260, 265
Tru9I TTAA 2 cut(s) 260, 265
TscAI CASTG 1 cut(s) 123
TspDTI ATGAA 2 cut(s) 23, 217
TspRI CASTG 1 cut(s) 123
XceI RCATGY 1 cut(s) 147
XspI CTAG 2 cut(s) 44, 104
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.