RchiOBHm_Chr5g0006161

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000334
Physical Location & Seq
Forward (+)
3839935 .. 3840588
654 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ28730

Sequence Viewer

Length: 330 bp
ATGGCTAAAGCTGATACCAATGCATCCATGGTCATGAACTTGACAGTTCTGATGGTGTCTTTTCTCCTTCTAGTCTCCTTGGCCGAAAGCCAATTTTTCGGAAATGGGATCTTGACACCTCCCAGTCCCATGGCTCCGCCTCCCAGCTCTCCCTCCCCTCCCACCCTAGAATGTGATTCAGTGTATGGTGTAATAAGTGGAGACACATGCTTTGAGGTGGCTAAGACGTTCAAACTCACTCTTGCATTGTTTGAAACACTCAACCCCAATCTCAATTGCTCAGCTCTCTTCATAGGTCAATGGCTTTGCCTTGATGGAAAATTAACCTAA
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

109

Amino Acids

11.6

Weight (kDa)

4.29

Isoelectric Point (pI)

42.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 63 - 104 4e-08 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)
AciI CCGC 1 cut(s) 137
AclWI GGATC 1 cut(s) 116
AcoI YGGCCR 1 cut(s) 81
AgsI TTSAA 2 cut(s) 232, 254
AluBI AGCT 3 cut(s) 11, 147, 284
AluI AGCT 3 cut(s) 11, 147, 284
Alw26I GTCTC 2 cut(s) 79, 195
AlwI GGATC 1 cut(s) 116
AoxI GGCC 1 cut(s) 81
ArsI GACNNNNNNTTYG 2 cut(s) 194, 226
BccI CCATC 2 cut(s) 46, 308
BcoDI GTCTC 2 cut(s) 79, 195
BfaI CTAG 2 cut(s) 71, 167
BlpI GCTNAGC 1 cut(s) 280
BmiI GGNNCC 1 cut(s) 135
BmrI ACTGGG 1 cut(s) 117
BmsI GCATC 1 cut(s) 32
BmuI ACTGGG 1 cut(s) 117
Bpu1102I GCTNAGC 1 cut(s) 280
BsaJI CCNNGG 3 cut(s) 27, 78, 129
Bse1I ACTGG 1 cut(s) 123
BseDI CCNNGG 3 cut(s) 27, 78, 129
BseGI GGATG 1 cut(s) 23
BseMII CTCAG 1 cut(s) 294
BseNI ACTGG 1 cut(s) 123
BseYI CCCAGC 1 cut(s) 143
BshFI GGCC 1 cut(s) 83
BslFI GGGAC 1 cut(s) 111
BsmAI GTCTC 2 cut(s) 79, 195
BsmFI GGGAC 1 cut(s) 111
BsnI GGCC 1 cut(s) 83
Bsp143I GATC 1 cut(s) 108
Bsp1720I GCTNAGC 1 cut(s) 280
Bsp19I CCATGG 2 cut(s) 27, 129
BspACI CCGC 1 cut(s) 137
BspANI GGCC 1 cut(s) 83
BspCNI CTCAG 1 cut(s) 293
BspHI TCATGA 1 cut(s) 33
BspLI GGNNCC 1 cut(s) 135
BspPI GGATC 1 cut(s) 116
BsrI ACTGG 1 cut(s) 123
BssECI CCNNGG 3 cut(s) 27, 78, 129
BssMI GATC 1 cut(s) 108
BssT1I CCWWGG 3 cut(s) 27, 78, 129
Bst4CI ACNGT 1 cut(s) 46
Bst6I CTCTTC 1 cut(s) 293
BstDEI CTNAG 2 cut(s) 222, 280
BstDSI CCRYGG 2 cut(s) 27, 129
BstF5I GGATG 1 cut(s) 23
BstKTI GATC 1 cut(s) 111
BstMAI GTCTC 2 cut(s) 79, 195
BstMBI GATC 1 cut(s) 108
BstNSI RCATGY 1 cut(s) 210
BstX2I RGATCY 1 cut(s) 108
BstXI CCANNNNNNTGG 1 cut(s) 130
BstYI RGATCY 1 cut(s) 108
BsuRI GGCC 1 cut(s) 83
BtgI CCRYGG 2 cut(s) 27, 129
BtsCI GGATG 1 cut(s) 23
BtsIMutI CAGTG 1 cut(s) 186
CciI TCATGA 1 cut(s) 33
CviAII CATG 4 cut(s) 28, 34, 130, 207
CviJI RGCY 9 cut(s) 5, 11, 83, 90, 134, 147, 221, 284, 304
CviKI_1 RGCY 9 cut(s) 5, 11, 83, 90, 134, 147, 221, 284, 304
DdeI CTNAG 2 cut(s) 222, 280
DpnI GATC 1 cut(s) 110
DpnII GATC 1 cut(s) 108
EaeI YGGCCR 1 cut(s) 81
Eam1104I CTCTTC 1 cut(s) 293
EarI CTCTTC 1 cut(s) 293
EciI GGCGGA 1 cut(s) 126
Eco130I CCWWGG 3 cut(s) 27, 78, 129
EcoT14I CCWWGG 3 cut(s) 27, 78, 129
EcoT22I ATGCAT 1 cut(s) 25
ErhI CCWWGG 3 cut(s) 27, 78, 129
FaeI CATG 4 cut(s) 31, 37, 133, 210
FaiI YATR 6 cut(s) 29, 35, 131, 186, 208, 293
FaqI GGGAC 1 cut(s) 111
FatI CATG 4 cut(s) 27, 33, 129, 206
FokI GGATG 1 cut(s) 10
FspBI CTAG 2 cut(s) 71, 167
GsaI CCCAGC 1 cut(s) 147
HaeIII GGCC 1 cut(s) 83
Hin1II CATG 4 cut(s) 31, 37, 133, 210
HinfI GANTC 1 cut(s) 176
Hpy188I TCNGA 2 cut(s) 51, 101
Hpy188III TCNNGA 2 cut(s) 34, 112
HpyAV CCTTC 1 cut(s) 77
HpyCH4III ACNGT 1 cut(s) 46
HpyCH4IV ACGT 1 cut(s) 227
HpyCH4V TGCA 2 cut(s) 23, 245
HpyF3I CTNAG 2 cut(s) 222, 280
HpySE526I ACGT 1 cut(s) 227
Hsp92II CATG 4 cut(s) 31, 37, 133, 210
Kzo9I GATC 1 cut(s) 108
LmnI GCTCC 1 cut(s) 139
LpnPI CCDG 2 cut(s) 136, 157
LweI GCATC 1 cut(s) 32
MaeI CTAG 2 cut(s) 71, 167
MaeII ACGT 1 cut(s) 227
MalI GATC 1 cut(s) 110
MboI GATC 1 cut(s) 108
MboII GAAGA 1 cut(s) 280
MfeI CAATTG 1 cut(s) 274
MflI RGATCY 1 cut(s) 108
MluCI AATT 3 cut(s) 92, 274, 320
MnlI CCTC 5 cut(s) 129, 150, 163, 168, 208
Mph1103I ATGCAT 1 cut(s) 25
MseI TTAA 1 cut(s) 323
MslI CAYNNNNRTG 1 cut(s) 32
MunI CAATTG 1 cut(s) 274
NcoI CCATGG 2 cut(s) 27, 129
NdeII GATC 1 cut(s) 108
NlaIII CATG 4 cut(s) 31, 37, 133, 210
NlaIV GGNNCC 1 cut(s) 135
NsiI ATGCAT 1 cut(s) 25
NspI RCATGY 1 cut(s) 210
PagI TCATGA 1 cut(s) 33
PfeI GAWTC 1 cut(s) 176
PspFI CCCAGC 1 cut(s) 143
PspN4I GGNNCC 1 cut(s) 135
PsuI RGATCY 1 cut(s) 108
RseI CAYNNNNRTG 1 cut(s) 32
SaqAI TTAA 1 cut(s) 323
Sau3AI GATC 1 cut(s) 108
SetI ASST 8 cut(s) 13, 121, 149, 219, 230, 286, 298, 329
SfaNI GCATC 1 cut(s) 32
SmiMI CAYNNNNRTG 1 cut(s) 32
Sse9I AATT 3 cut(s) 92, 274, 320
SsiI CCGC 1 cut(s) 137
SspMI CTAG 2 cut(s) 71, 167
StyI CCWWGG 3 cut(s) 27, 78, 129
TaaI ACNGT 1 cut(s) 46
TaiI ACGT 1 cut(s) 230
TasI AATT 3 cut(s) 92, 274, 320
TfiI GAWTC 1 cut(s) 176
Tru1I TTAA 1 cut(s) 323
Tru9I TTAA 1 cut(s) 323
TscAI CASTG 1 cut(s) 186
TspDTI ATGAA 2 cut(s) 50, 280
TspRI CASTG 1 cut(s) 186
XceI RCATGY 1 cut(s) 210
XcmI CCANNNNNNNNNTGG 1 cut(s) 25
XspI CTAG 2 cut(s) 71, 167
Zsp2I ATGCAT 1 cut(s) 25
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.