Rmu_sc0000879.1_g000008

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000879.1
OG0017497
Physical Location & Seq
Forward (+)
27822 .. 28766
945 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 837 bp
atgtctatactaccactccttaattactacaaggctatagagcgcaaaccaaactgcaatagccctggatcagcatgctatgatccacgtttcatcggtggtgatggcattgttttctatttccacggcaagagcaacgagcagttcagcttagtctcagacaaaaacctccagatcaatggccgcttcattggccacagaccagccggccgtgctcgtgactatacctggattcaggcccttggagtccttctgaactcccagagtttctctgtggaagccaccaaagtggctacatggaacaaccaaattgaccatctgagattcactcacaatggaaatgatgtagttctggaagaagggtatctttccacttggtactcaccagataaagatatcaaagttgagagaatagcaagcaagaacagtgtgatagtgtcgctcaaggatgtagctgagattatgatcaatgttgtaccagtgaccaaagaagatgataggattcacaactaccaagtacctgaaaatgactgctttgcccatttggaagcccagttcaagttctttgctctgtccccaaaagttgagggagttcttggaaggacttacaggcccgattttgagaacccggcaaagcctggagtggcaatgccagttattggaggtgaagagaagtacataaccacatcacttctctctgctgattgtgatacttgtgatttgttctcaaaggaaattagtgagtccgagaaagaaacttcagcaattgtggactatggtacactagactgtaccagaagatcctcaggagggtatgggattgtttgcaagaaatga
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
Root_cap

Protein Analysis

278

Amino Acids

31.08

Weight (kDa)

5.74

Isoelectric Point (pI)

37.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 185 - 239 1e-25 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0017497)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G27400 AT5G54370
malus_domestica MD11G1238300.v1.1
prunus_persica Prupe.4G188500_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0035121
rosa_multiflora Rmu_sc0000879.1_g000008 Rmu_sc0005362.1_g000004
rosa_rugosa Rorug05G0150200
rosa_samantha Rh5AG243000 Rh5BG242600 Rh5CG274200 Rh5DG251300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 659
AciI CCGC 1 cut(s) 184
AclWI GGATC 3 cut(s) 76, 77, 795
AcoI YGGCCR 3 cut(s) 181, 193, 208
AcuI CTGAAG 1 cut(s) 744
AfaI GTAC 6 cut(s) 380, 477, 519, 677, 781, 793
AfiI CCNNNNNNNGG 2 cut(s) 659, 810
AgsI TTSAA 1 cut(s) 559
AjnI CCWGG 3 cut(s) 64, 227, 637
AleI CACNNNNGTG 1 cut(s) 287
AloI GAACNNNNNNTCC 2 cut(s) 539, 571
AluBI AGCT 2 cut(s) 150, 455
AluI AGCT 2 cut(s) 150, 455
Alw21I GWGCWC 1 cut(s) 217
Alw26I GTCTC 1 cut(s) 160
AlwI GGATC 3 cut(s) 76, 77, 795
AoxI GGCC 5 cut(s) 181, 193, 208, 237, 611
AspLEI GCGC 1 cut(s) 45
AspS9I GGNCC 2 cut(s) 238, 612
AsuC2I CCSGG 1 cut(s) 629
AsuHPI GGTGA 3 cut(s) 113, 375, 677
AxyI CCTNAGG 1 cut(s) 805
BalI TGGCCA 1 cut(s) 195
BauI CACGAG 1 cut(s) 216
Bbv12I GWGCWC 1 cut(s) 217
BccI CCATC 2 cut(s) 98, 324
BceAI ACGGC 2 cut(s) 142, 195
BciT130I CCWGG 3 cut(s) 66, 229, 639
BclI TGATCA 1 cut(s) 465
BcnI CCSGG 1 cut(s) 629
BcoDI GTCTC 1 cut(s) 160
BfaI CTAG 1 cut(s) 785
BfmI CTRYAG 1 cut(s) 36
BisI GCNGC 1 cut(s) 184
BlsI GCNGC 1 cut(s) 185
Bme1390I CCNGG 4 cut(s) 66, 229, 629, 639
BmgT120I GGNCC 2 cut(s) 238, 612
BmrFI CCNGG 4 cut(s) 66, 229, 629, 639
BmrI ACTGGG 1 cut(s) 547
BmuI ACTGGG 1 cut(s) 547
BplI GAGNNNNNCTC 2 cut(s) 313, 345
BpmI CTGGAG 2 cut(s) 155, 660
BpuEI CTTGAG 1 cut(s) 428
BpuMI CCSGG 1 cut(s) 629
BsaBI GATNNNNATC 1 cut(s) 464
BsaJI CCNNGG 3 cut(s) 64, 124, 241
BsaXI ACNNNNNCTCC 1 cut(s) 30
Bsc4I CCNNNNNNNGG 2 cut(s) 659, 810
Bse118I RCCGGY 1 cut(s) 206
Bse1I ACTGG 3 cut(s) 479, 553, 653
Bse21I CCTNAGG 1 cut(s) 805
Bse3DI GCAATG 1 cut(s) 654
Bse8I GATNNNNATC 1 cut(s) 464
BseBI CCWGG 3 cut(s) 66, 229, 639
BseDI CCNNGG 3 cut(s) 64, 124, 241
BseGI GGATG 1 cut(s) 454
BseJI GATNNNNATC 1 cut(s) 464
BseLI CCNNNNNNNGG 2 cut(s) 659, 810
BseMI GCAATG 1 cut(s) 654
BseMII CTCAG 4 cut(s) 171, 311, 447, 819
BseNI ACTGG 3 cut(s) 479, 553, 653
BseX3I CGGCCG 1 cut(s) 208
Bsh1285I CGRYCG 1 cut(s) 211
BshFI GGCC 5 cut(s) 183, 195, 210, 239, 613
BsiEI CGRYCG 1 cut(s) 211
BsiHKAI GWGCWC 1 cut(s) 217
BsiSI CCGG 2 cut(s) 207, 629
BslFI GGGAC 1 cut(s) 559
BslI CCNNNNNNNGG 2 cut(s) 659, 810
BsmAI GTCTC 1 cut(s) 160
BsmFI GGGAC 1 cut(s) 559
BsnI GGCC 5 cut(s) 183, 195, 210, 239, 613
Bsp1286I GDGCHC 1 cut(s) 217
Bsp143I GATC 5 cut(s) 68, 82, 174, 465, 800
BspACI CCGC 1 cut(s) 184
BspANI GGCC 5 cut(s) 183, 195, 210, 239, 613
BspCNI CTCAG 4 cut(s) 170, 312, 448, 818
BspPI GGATC 3 cut(s) 76, 77, 795
BsrDI GCAATG 1 cut(s) 654
BsrFI RCCGGY 1 cut(s) 206
BsrI ACTGG 3 cut(s) 479, 553, 653
BssAI RCCGGY 1 cut(s) 206
BssECI CCNNGG 3 cut(s) 64, 124, 241
BssMI GATC 5 cut(s) 68, 82, 174, 465, 800
BssSI CACGAG 1 cut(s) 216
BssT1I CCWWGG 1 cut(s) 241
Bst2BI CACGAG 1 cut(s) 216
Bst2UI CCWGG 3 cut(s) 66, 229, 639
Bst4CI ACNGT 2 cut(s) 428, 791
Bst6I CTCTTC 1 cut(s) 663
BstC8I GCNNGC 3 cut(s) 76, 208, 418
BstDEI CTNAG 5 cut(s) 151, 157, 320, 456, 805
BstDSI CCRYGG 1 cut(s) 124
BstF5I GGATG 1 cut(s) 454
BstHHI GCGC 1 cut(s) 45
BstKTI GATC 5 cut(s) 71, 85, 177, 468, 803
BstMAI GTCTC 1 cut(s) 160
BstMBI GATC 5 cut(s) 68, 82, 174, 465, 800
BstMCI CGRYCG 1 cut(s) 211
BstMWI GCNNNNNNNGC 2 cut(s) 192, 212
BstNI CCWGG 3 cut(s) 66, 229, 639
BstNSI RCATGY 1 cut(s) 78
BstSCI CCNGG 4 cut(s) 64, 227, 627, 637
BstSFI CTRYAG 1 cut(s) 36
BstX2I RGATCY 1 cut(s) 800
BstXI CCANNNNNNTGG 2 cut(s) 179, 289
BstYI RGATCY 1 cut(s) 800
BstZI CGGCCG 1 cut(s) 208
Bsu36I CCTNAGG 1 cut(s) 805
BsuRI GGCC 5 cut(s) 183, 195, 210, 239, 613
BtgI CCRYGG 1 cut(s) 124
BtsCI GGATG 1 cut(s) 454
BtsIMutI CAGTG 2 cut(s) 433, 486
Cac8I GCNNGC 3 cut(s) 76, 208, 418
CfoI GCGC 1 cut(s) 45
Cfr10I RCCGGY 1 cut(s) 206
Cfr13I GGNCC 2 cut(s) 238, 612
Csp6I GTAC 6 cut(s) 379, 476, 518, 676, 780, 792
CviAII CATG 2 cut(s) 75, 297
CviQI GTAC 6 cut(s) 379, 476, 518, 676, 780, 792
DdeI CTNAG 5 cut(s) 151, 157, 320, 456, 805
DpnI GATC 5 cut(s) 70, 84, 176, 467, 802
DpnII GATC 5 cut(s) 68, 82, 174, 465, 800
EaeI YGGCCR 3 cut(s) 181, 193, 208
EagI CGGCCG 1 cut(s) 208
Eam1104I CTCTTC 1 cut(s) 663
EarI CTCTTC 1 cut(s) 663
EclXI CGGCCG 1 cut(s) 208
Eco130I CCWWGG 1 cut(s) 241
Eco32I GATATC 1 cut(s) 397
Eco52I CGGCCG 1 cut(s) 208
Eco57I CTGAAG 1 cut(s) 744
Eco81I CCTNAGG 1 cut(s) 805
EcoO109I RGGNCCY 1 cut(s) 238
EcoRII CCWGG 3 cut(s) 64, 227, 637
EcoRV GATATC 1 cut(s) 397
EcoT14I CCWWGG 1 cut(s) 241
ErhI CCWWGG 1 cut(s) 241
FaeI CATG 2 cut(s) 78, 300
FalI AAGNNNNNCTT 2 cut(s) 351, 383
FaqI GGGAC 1 cut(s) 559
FatI CATG 2 cut(s) 74, 296
FbaI TGATCA 1 cut(s) 465
Fnu4HI GCNGC 1 cut(s) 184
FokI GGATG 1 cut(s) 461
Fsp4HI GCNGC 1 cut(s) 184
FspBI CTAG 1 cut(s) 785
GlaI GCGC 1 cut(s) 44
GluI GCNGC 1 cut(s) 184
GsuI CTGGAG 2 cut(s) 155, 660
HaeIII GGCC 5 cut(s) 183, 195, 210, 239, 613
HapII CCGG 2 cut(s) 207, 629
HhaI GCGC 1 cut(s) 45
Hin1II CATG 2 cut(s) 78, 300
Hin6I GCGC 1 cut(s) 43
HinP1I GCGC 1 cut(s) 43
HinfI GANTC 5 cut(s) 232, 246, 324, 502, 743
HpaII CCGG 2 cut(s) 207, 629
HphI GGTGA 3 cut(s) 113, 375, 677
Hpy166II GTNNAC 2 cut(s) 772, 782
Hpy188I TCNGA 4 cut(s) 160, 255, 321, 748
Hpy188III TCNNGA 4 cut(s) 172, 218, 353, 807
Hpy8I GTNNAC 2 cut(s) 772, 782
HpyAV CCTTC 3 cut(s) 260, 353, 594
HpyCH4III ACNGT 2 cut(s) 428, 791
HpyCH4IV ACGT 1 cut(s) 88
HpyCH4V TGCA 2 cut(s) 57, 828
HpyF10VI GCNNNNNNNGC 2 cut(s) 192, 212
HpyF3I CTNAG 5 cut(s) 151, 157, 320, 456, 805
HpySE526I ACGT 1 cut(s) 88
Hsp92II CATG 2 cut(s) 78, 300
HspAI GCGC 1 cut(s) 43
KroI GCCGGC 1 cut(s) 206
KroNI GCCGGC 1 cut(s) 208
Ksp22I TGATCA 1 cut(s) 465
Kzo9I GATC 5 cut(s) 68, 82, 174, 465, 800
MaeI CTAG 1 cut(s) 785
MaeII ACGT 1 cut(s) 88
MaeIII GTNAC 2 cut(s) 218, 481
MalI GATC 5 cut(s) 70, 84, 176, 467, 802
MboI GATC 5 cut(s) 68, 82, 174, 465, 800
MboII GAAGA 4 cut(s) 368, 503, 680, 810
MfeI CAATTG 1 cut(s) 765
MflI RGATCY 1 cut(s) 800
MhlI GDGCHC 1 cut(s) 217
MlsI TGGCCA 1 cut(s) 195
MluCI AATT 4 cut(s) 22, 309, 735, 765
MluNI TGGCCA 1 cut(s) 195
MlyI GAGTC 2 cut(s) 255, 752
MnlI CCTC 5 cut(s) 179, 580, 656, 803, 814
Mox20I TGGCCA 1 cut(s) 195
MroNI GCCGGC 1 cut(s) 206
MscI TGGCCA 1 cut(s) 195
MseI TTAA 1 cut(s) 21
MslI CAYNNNNRTG 1 cut(s) 287
Msp20I TGGCCA 1 cut(s) 195
MspI CCGG 2 cut(s) 207, 629
MspR9I CCNGG 4 cut(s) 66, 229, 629, 639
MunI CAATTG 1 cut(s) 765
MvaI CCWGG 3 cut(s) 66, 229, 639
MwoI GCNNNNNNNGC 2 cut(s) 192, 212
NaeI GCCGGC 1 cut(s) 208
NciI CCSGG 1 cut(s) 629
NdeII GATC 5 cut(s) 68, 82, 174, 465, 800
NgoMIV GCCGGC 1 cut(s) 206
NlaIII CATG 2 cut(s) 78, 300
NmuCI GTSAC 2 cut(s) 218, 481
NspI RCATGY 1 cut(s) 78
OliI CACNNNNGTG 1 cut(s) 287
PaeI GCATGC 1 cut(s) 78
PdiI GCCGGC 1 cut(s) 208
PfeI GAWTC 3 cut(s) 232, 324, 502
PflMI CCANNNNNTGG 1 cut(s) 659
PkrI GCNGC 1 cut(s) 185
PleI GAGTC 2 cut(s) 254, 751
PpsI GAGTC 2 cut(s) 254, 751
Psp6I CCWGG 3 cut(s) 64, 227, 637
PspGI CCWGG 3 cut(s) 64, 227, 637
PspPI GGNCC 2 cut(s) 238, 612
PsuI RGATCY 1 cut(s) 800
RsaI GTAC 6 cut(s) 380, 477, 519, 677, 781, 793
RsaNI GTAC 6 cut(s) 379, 476, 518, 676, 780, 792
RseI CAYNNNNRTG 1 cut(s) 287
SaqAI TTAA 1 cut(s) 21
SatI GCNGC 1 cut(s) 184
Sau3AI GATC 5 cut(s) 68, 82, 174, 465, 800
Sau96I GGNCC 2 cut(s) 238, 612
SchI GAGTC 2 cut(s) 255, 752
ScrFI CCNGG 4 cut(s) 66, 229, 629, 639
SduI GDGCHC 1 cut(s) 217
SetI ASST 7 cut(s) 91, 152, 171, 230, 457, 523, 667
SfcI CTRYAG 1 cut(s) 36
SmiMI CAYNNNNRTG 1 cut(s) 287
SmlI CTYRAG 1 cut(s) 443
SmoI CTYRAG 1 cut(s) 443
SphI GCATGC 1 cut(s) 78
Sse9I AATT 4 cut(s) 22, 309, 735, 765
SsiI CCGC 1 cut(s) 184
SspMI CTAG 1 cut(s) 785
StyD4I CCNGG 4 cut(s) 64, 227, 627, 637
StyI CCWWGG 1 cut(s) 241
TaaI ACNGT 2 cut(s) 428, 791
TaiI ACGT 1 cut(s) 91
TasI AATT 4 cut(s) 22, 309, 735, 765
TatI WGTACW 1 cut(s) 675
TauI GCSGC 1 cut(s) 186
TfiI GAWTC 3 cut(s) 232, 324, 502
Tru1I TTAA 1 cut(s) 21
Tru9I TTAA 1 cut(s) 21
TscAI CASTG 2 cut(s) 433, 486
TseFI GTSAC 2 cut(s) 218, 481
Tsp45I GTSAC 2 cut(s) 218, 481
TspDTI ATGAA 2 cut(s) 82, 178
TspRI CASTG 2 cut(s) 433, 486
Van91I CCANNNNNTGG 1 cut(s) 659
XceI RCATGY 1 cut(s) 78
XspI CTAG 1 cut(s) 785
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.