Rh5CG055200

LysM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000334
Physical Location & Seq
Forward (+)
3987906 .. 3990656
2751 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG055200.1

Sequence Viewer

Length: 603 bp
ATGGCTAAAGCAAATAGCACTGCATCCATGGTTTTGACAGTTCTGATGCTGTCTTTTCTGCTCGTGGTCTGTTTCGCTGAAAGCCGATTTCTTGAAAACGGGATCCTGAAGCCGAAGCCTGCCACCGTGCAGTGTGATTCAGTGTACGGTGTGAAAAGTGGAGACACCTGTTTTGAAATTGCTGAGGCTTTCAACTTGCCTACTAAGGTCTTCAATTCCCTCAACCCCAATCTCAATTGCACAGCCCTTTTTGTAGGCCAATGGATTAGGAGAATGGGTAAAGCTGATACCAAAGCATCCATGGTTATGAACTTGACAGTTCTGATGATGTCTTTTCTGCTTCTAGTCTCCTTGGCCGAAAGCCAATTTTTCGGAAATGGGATCTTGACACCTCCCAGTCCCATGGCTCCGGCTCCCAGCTCTCCCTCCCCTCCCACCCTAGAATGTGATTCAGTGTATGGTGTAATAAGTGGAGACACATGCTTTGAGGTGGCTAAGACGTTCAAACTCACTATTGCATTGTTTGAAACACTCAACCCCAATCTCAATTGCTCAGCGCTCTTCATAGGTCAATGGCTTTGCCTTGATGGAAAATTAACCTAA
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

200

Amino Acids

21.58

Weight (kDa)

5.42

Isoelectric Point (pI)

36.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LysM PF01476 49 - 87 7.3e-09 LysM domain
LysM PF01476 154 - 195 8.3e-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)
AclWI GGATC 3 cut(s) 97, 110, 389
AcoI YGGCCR 1 cut(s) 354
AcuI CTGAAG 1 cut(s) 128
AfaI GTAC 1 cut(s) 146
AfeI AGCGCT 1 cut(s) 558
AgsI TTSAA 6 cut(s) 95, 176, 193, 214, 505, 527
AluBI AGCT 2 cut(s) 284, 420
AluI AGCT 2 cut(s) 284, 420
Alw26I GTCTC 3 cut(s) 156, 352, 468
AlwI GGATC 3 cut(s) 97, 110, 389
Aor51HI AGCGCT 1 cut(s) 558
AoxI GGCC 2 cut(s) 256, 354
ArsI GACNNNNNNTTYG 4 cut(s) 155, 187, 467, 499
AspLEI GCGC 1 cut(s) 559
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) 581
BcoDI GTCTC 3 cut(s) 156, 352, 468
BfaI CTAG 2 cut(s) 344, 440
BfoI RGCGCY 1 cut(s) 560
BlpI GCTNAGC 1 cut(s) 553
BmiI GGNNCC 3 cut(s) 104, 408, 414
BmrI ACTGGG 1 cut(s) 390
BmsI GCATC 3 cut(s) 32, 36, 305
BmuI ACTGGG 1 cut(s) 390
BpiI GAAGAC 1 cut(s) 202
Bpu10I CCTNAGC 1 cut(s) 183
Bpu1102I GCTNAGC 1 cut(s) 553
BsaJI CCNNGG 4 cut(s) 27, 300, 351, 402
BsaXI ACNNNNNCTCC 2 cut(s) 262, 292
Bse1I ACTGG 1 cut(s) 396
BseDI CCNNGG 4 cut(s) 27, 300, 351, 402
BseGI GGATG 2 cut(s) 23, 296
BseMII CTCAG 2 cut(s) 174, 567
BseNI ACTGG 1 cut(s) 396
BseYI CCCAGC 1 cut(s) 416
BsgI GTGCAG 1 cut(s) 149
BshFI GGCC 2 cut(s) 258, 356
BsiSI CCGG 1 cut(s) 410
BslFI GGGAC 1 cut(s) 384
BsmAI GTCTC 3 cut(s) 156, 352, 468
BsmFI GGGAC 1 cut(s) 384
BsnI GGCC 2 cut(s) 258, 356
Bsp143I GATC 2 cut(s) 102, 381
Bsp1720I GCTNAGC 1 cut(s) 553
Bsp19I CCATGG 3 cut(s) 27, 300, 402
BspANI GGCC 2 cut(s) 258, 356
BspCNI CTCAG 2 cut(s) 175, 566
BspLI GGNNCC 3 cut(s) 104, 408, 414
BspPI GGATC 3 cut(s) 97, 110, 389
BspQI GCTCTTC 1 cut(s) 566
BsrI ACTGG 1 cut(s) 396
BssECI CCNNGG 4 cut(s) 27, 300, 351, 402
BssMI GATC 2 cut(s) 102, 381
BssSI CACGAG 1 cut(s) 62
BssT1I CCWWGG 4 cut(s) 27, 300, 351, 402
Bst2BI CACGAG 1 cut(s) 62
Bst4CI ACNGT 4 cut(s) 40, 127, 149, 319
Bst6I CTCTTC 1 cut(s) 566
BstC8I GCNNGC 1 cut(s) 120
BstDEI CTNAG 4 cut(s) 183, 204, 495, 553
BstDSI CCRYGG 3 cut(s) 27, 300, 402
BstF5I GGATG 2 cut(s) 23, 296
BstH2I RGCGCY 1 cut(s) 560
BstHHI GCGC 1 cut(s) 559
BstKTI GATC 2 cut(s) 105, 384
BstMAI GTCTC 3 cut(s) 156, 352, 468
BstMBI GATC 2 cut(s) 102, 381
BstNSI RCATGY 1 cut(s) 483
BstV2I GAAGAC 1 cut(s) 202
BstX2I RGATCY 2 cut(s) 102, 381
BstXI CCANNNNNNTGG 1 cut(s) 403
BstYI RGATCY 2 cut(s) 102, 381
BsuRI GGCC 2 cut(s) 258, 356
BtgI CCRYGG 3 cut(s) 27, 300, 402
BtsCI GGATG 2 cut(s) 23, 296
BtsI GCAGTG 2 cut(s) 18, 137
BtsIMutI CAGTG 4 cut(s) 18, 137, 147, 459
Cac8I GCNNGC 1 cut(s) 120
CfoI GCGC 1 cut(s) 559
Csp6I GTAC 1 cut(s) 145
CviAII CATG 4 cut(s) 28, 301, 403, 480
CviQI GTAC 1 cut(s) 145
DdeI CTNAG 4 cut(s) 183, 204, 495, 553
DpnI GATC 2 cut(s) 104, 383
DpnII GATC 2 cut(s) 102, 381
EaeI YGGCCR 1 cut(s) 354
Eam1104I CTCTTC 1 cut(s) 566
EarI CTCTTC 1 cut(s) 566
Eco130I CCWWGG 4 cut(s) 27, 300, 351, 402
Eco47III AGCGCT 1 cut(s) 558
Eco57I CTGAAG 1 cut(s) 128
EcoT14I CCWWGG 4 cut(s) 27, 300, 351, 402
ErhI CCWWGG 4 cut(s) 27, 300, 351, 402
FaeI CATG 4 cut(s) 31, 304, 406, 483
FaiI YATR 7 cut(s) 29, 302, 308, 404, 459, 481, 566
FaqI GGGAC 1 cut(s) 384
FatI CATG 4 cut(s) 27, 300, 402, 479
FokI GGATG 2 cut(s) 10, 283
FspBI CTAG 2 cut(s) 344, 440
GlaI GCGC 1 cut(s) 558
GsaI CCCAGC 1 cut(s) 420
HaeII RGCGCY 1 cut(s) 560
HaeIII GGCC 2 cut(s) 258, 356
HapII CCGG 1 cut(s) 410
HhaI GCGC 1 cut(s) 559
Hin1II CATG 4 cut(s) 31, 304, 406, 483
Hin6I GCGC 1 cut(s) 557
HinP1I GCGC 1 cut(s) 557
HinfI GANTC 2 cut(s) 137, 449
HpaII CCGG 1 cut(s) 410
Hpy166II GTNNAC 1 cut(s) 145
Hpy188I TCNGA 3 cut(s) 45, 324, 374
Hpy188III TCNNGA 3 cut(s) 92, 106, 385
Hpy8I GTNNAC 1 cut(s) 145
HpyCH4III ACNGT 4 cut(s) 40, 127, 149, 319
HpyCH4IV ACGT 1 cut(s) 500
HpyCH4V TGCA 4 cut(s) 23, 130, 240, 518
HpyF3I CTNAG 4 cut(s) 183, 204, 495, 553
HpySE526I ACGT 1 cut(s) 500
Hsp92II CATG 4 cut(s) 31, 304, 406, 483
HspAI GCGC 1 cut(s) 557
Kzo9I GATC 2 cut(s) 102, 381
LguI GCTCTTC 1 cut(s) 566
LmnI GCTCC 2 cut(s) 412, 418
LpnPI CCDG 6 cut(s) 119, 132, 181, 409, 423, 430
LweI GCATC 3 cut(s) 32, 36, 305
MaeI CTAG 2 cut(s) 344, 440
MaeII ACGT 1 cut(s) 500
MalI GATC 2 cut(s) 104, 383
MboI GATC 2 cut(s) 102, 381
MboII GAAGA 2 cut(s) 202, 553
MfeI CAATTG 2 cut(s) 235, 547
MflI RGATCY 2 cut(s) 102, 381
MluCI AATT 6 cut(s) 177, 214, 235, 365, 547, 593
MnlI CCTC 6 cut(s) 178, 230, 402, 436, 441, 481
MseI TTAA 1 cut(s) 596
MslI CAYNNNNRTG 1 cut(s) 305
MspI CCGG 1 cut(s) 410
MunI CAATTG 2 cut(s) 235, 547
NcoI CCATGG 3 cut(s) 27, 300, 402
NdeII GATC 2 cut(s) 102, 381
NlaIII CATG 4 cut(s) 31, 304, 406, 483
NlaIV GGNNCC 3 cut(s) 104, 408, 414
NspI RCATGY 1 cut(s) 483
PciSI GCTCTTC 1 cut(s) 566
PfeI GAWTC 2 cut(s) 137, 449
PspFI CCCAGC 1 cut(s) 416
PspN4I GGNNCC 3 cut(s) 104, 408, 414
PsuI RGATCY 2 cut(s) 102, 381
RsaI GTAC 1 cut(s) 146
RsaNI GTAC 1 cut(s) 145
RseI CAYNNNNRTG 1 cut(s) 305
SapI GCTCTTC 1 cut(s) 566
SaqAI TTAA 1 cut(s) 596
Sau3AI GATC 2 cut(s) 102, 381
SetI ASST 9 cut(s) 170, 210, 286, 394, 422, 492, 503, 571, 602
SfaNI GCATC 3 cut(s) 32, 36, 305
SmiMI CAYNNNNRTG 1 cut(s) 305
Sse9I AATT 6 cut(s) 177, 214, 235, 365, 547, 593
SspMI CTAG 2 cut(s) 344, 440
StyI CCWWGG 4 cut(s) 27, 300, 351, 402
TaaI ACNGT 4 cut(s) 40, 127, 149, 319
TaiI ACGT 1 cut(s) 503
TasI AATT 6 cut(s) 177, 214, 235, 365, 547, 593
TfiI GAWTC 2 cut(s) 137, 449
Tru1I TTAA 1 cut(s) 596
Tru9I TTAA 1 cut(s) 596
TscAI CASTG 4 cut(s) 25, 137, 147, 459
TspDTI ATGAA 2 cut(s) 323, 553
TspRI CASTG 4 cut(s) 25, 137, 147, 459
XceI RCATGY 1 cut(s) 483
XcmI CCANNNNNNNNNTGG 1 cut(s) 298
XspI CTAG 2 cut(s) 344, 440
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.