Rmu_sc0005362.1_g000004

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0005362.1
OG0017497
Physical Location & Seq
Forward (+)
19479 .. 20919
1441 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 771 bp
ctgatacccaaaggctatgggaatactgttaagtgcccaacccagcaagcagatgctatgggaagattgttaagtgcccatatgaatgcccaaccagttactctgaagacccgaaagccaaaatttgctatatcgactgtgattcacccatatgcaaggcgcattgcaagcgcccttggagtccttctgaactcccagagtttctctgtggaagccaccaaagtggctacatggaacaaccaaattgaccatctgagattcactcacaatggaaatgatgtagttctggaagaagggtatctttccacttggtactcaccagataaagatatcaaagttgagagaatagcaagcaagaacagtgtgatagtgtcgctcaaggatgtagctgagattatgatcaatgttgtaccagtgaccaaagaagatgataggattcacaactaccaagtacctgaaaatgactgctttgcccatttggaagcccagttcaagttctttgctctgtccccaaaagttgagggagttcttggaaggacttacaggcccgattttgagaacccggcaaagcctggagtggcaatgccagttattggaggtgaagagaagtacagaaccacatcacttctctctgctgattgtgctacttgtgatttgttctcaaaggaaattagtgagtccgagaaagaaacttcagcaattgtggactatggtacactagactgtaccagaagatcctcaggagggtatgggattgtttccaagaaatga
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

256

Amino Acids

28.3

Weight (kDa)

7.78

Isoelectric Point (pI)

30.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 163 - 217 1.2e-26 Root cap
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: 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) 593
AclWI GGATC 1 cut(s) 729
AcsI RAATTY 1 cut(s) 122
AcuI CTGAAG 2 cut(s) 125, 678
AfaI GTAC 6 cut(s) 314, 411, 453, 611, 715, 727
AfiI CCNNNNNNNGG 2 cut(s) 593, 744
AgsI TTSAA 1 cut(s) 493
AjnI CCWGG 1 cut(s) 571
AleI CACNNNNGTG 1 cut(s) 221
AloI GAACNNNNNNTCC 2 cut(s) 473, 505
AluBI AGCT 1 cut(s) 389
AluI AGCT 1 cut(s) 389
AlwI GGATC 1 cut(s) 729
AoxI GGCC 1 cut(s) 545
ApoI RAATTY 1 cut(s) 122
AspLEI GCGC 2 cut(s) 162, 173
AspS9I GGNCC 1 cut(s) 546
AsuC2I CCSGG 1 cut(s) 563
AsuHPI GGTGA 3 cut(s) 137, 309, 611
AxyI CCTNAGG 1 cut(s) 739
BaeGI GKGCMC 2 cut(s) 38, 79
BbsI GAAGAC 1 cut(s) 113
BccI CCATC 1 cut(s) 258
BciT130I CCWGG 1 cut(s) 573
BclI TGATCA 1 cut(s) 399
BcnI CCSGG 1 cut(s) 563
BfaI CTAG 1 cut(s) 719
BfoI RGCGCY 1 cut(s) 174
Bme1390I CCNGG 2 cut(s) 563, 573
BmgT120I GGNCC 1 cut(s) 546
BmrFI CCNGG 2 cut(s) 563, 573
BmrI ACTGGG 1 cut(s) 481
BmsI GCATC 1 cut(s) 43
BmuI ACTGGG 1 cut(s) 481
BpiI GAAGAC 1 cut(s) 113
BplI GAGNNNNNCTC 2 cut(s) 247, 279
BpmI CTGGAG 1 cut(s) 594
BpuEI CTTGAG 1 cut(s) 362
BpuMI CCSGG 1 cut(s) 563
BsaBI GATNNNNATC 1 cut(s) 398
BsaJI CCNNGG 1 cut(s) 175
Bsc4I CCNNNNNNNGG 2 cut(s) 593, 744
Bse1I ACTGG 4 cut(s) 95, 413, 487, 587
Bse21I CCTNAGG 1 cut(s) 739
Bse3DI GCAATG 2 cut(s) 162, 588
Bse8I GATNNNNATC 1 cut(s) 398
BseBI CCWGG 1 cut(s) 573
BseDI CCNNGG 1 cut(s) 175
BseGI GGATG 1 cut(s) 388
BseJI GATNNNNATC 1 cut(s) 398
BseLI CCNNNNNNNGG 2 cut(s) 593, 744
BseMI GCAATG 2 cut(s) 162, 588
BseMII CTCAG 3 cut(s) 245, 381, 753
BseNI ACTGG 4 cut(s) 95, 413, 487, 587
BseSI GKGCMC 2 cut(s) 38, 79
BseYI CCCAGC 1 cut(s) 42
BshFI GGCC 1 cut(s) 547
BsiSI CCGG 1 cut(s) 563
BslFI GGGAC 1 cut(s) 493
BslI CCNNNNNNNGG 2 cut(s) 593, 744
BsmFI GGGAC 1 cut(s) 493
BsmI GAATGC 1 cut(s) 91
BsnI GGCC 1 cut(s) 547
Bsp1286I GDGCHC 2 cut(s) 38, 79
Bsp143I GATC 2 cut(s) 399, 734
BspANI GGCC 1 cut(s) 547
BspCNI CTCAG 3 cut(s) 246, 382, 752
BspPI GGATC 1 cut(s) 729
BsrDI GCAATG 2 cut(s) 162, 588
BsrI ACTGG 4 cut(s) 95, 413, 487, 587
BssECI CCNNGG 1 cut(s) 175
BssMI GATC 2 cut(s) 399, 734
BssT1I CCWWGG 1 cut(s) 175
Bst2UI CCWGG 1 cut(s) 573
Bst4CI ACNGT 4 cut(s) 28, 139, 362, 725
Bst6I CTCTTC 1 cut(s) 597
BstC8I GCNNGC 3 cut(s) 48, 169, 352
BstDEI CTNAG 3 cut(s) 254, 390, 739
BstF5I GGATG 1 cut(s) 388
BstH2I RGCGCY 1 cut(s) 174
BstHHI GCGC 2 cut(s) 162, 173
BstKTI GATC 2 cut(s) 402, 737
BstMBI GATC 2 cut(s) 399, 734
BstMWI GCNNNNNNNGC 2 cut(s) 168, 641
BstNI CCWGG 1 cut(s) 573
BstSCI CCNGG 2 cut(s) 561, 571
BstSLI GKGCMC 2 cut(s) 38, 79
BstV2I GAAGAC 1 cut(s) 113
BstX2I RGATCY 1 cut(s) 734
BstXI CCANNNNNNTGG 1 cut(s) 223
BstYI RGATCY 1 cut(s) 734
Bsu36I CCTNAGG 1 cut(s) 739
BsuRI GGCC 1 cut(s) 547
BtsCI GGATG 1 cut(s) 388
BtsIMutI CAGTG 2 cut(s) 367, 420
Cac8I GCNNGC 3 cut(s) 48, 169, 352
CfoI GCGC 2 cut(s) 162, 173
Cfr13I GGNCC 1 cut(s) 546
Csp6I GTAC 6 cut(s) 313, 410, 452, 610, 714, 726
CviAII CATG 1 cut(s) 231
CviJI RGCY 8 cut(s) 15, 118, 215, 227, 389, 485, 547, 571
CviKI_1 RGCY 8 cut(s) 15, 118, 215, 227, 389, 485, 547, 571
CviQI GTAC 6 cut(s) 313, 410, 452, 610, 714, 726
DdeI CTNAG 3 cut(s) 254, 390, 739
DpnI GATC 2 cut(s) 401, 736
DpnII GATC 2 cut(s) 399, 734
Eam1104I CTCTTC 1 cut(s) 597
EarI CTCTTC 1 cut(s) 597
Eco130I CCWWGG 1 cut(s) 175
Eco32I GATATC 1 cut(s) 331
Eco57I CTGAAG 2 cut(s) 125, 678
Eco81I CCTNAGG 1 cut(s) 739
EcoRII CCWGG 1 cut(s) 571
EcoRV GATATC 1 cut(s) 331
EcoT14I CCWWGG 1 cut(s) 175
ErhI CCWWGG 1 cut(s) 175
FaeI CATG 1 cut(s) 234
FalI AAGNNNNNCTT 2 cut(s) 285, 317
FaqI GGGAC 1 cut(s) 493
FatI CATG 1 cut(s) 230
FauNDI CATATG 2 cut(s) 81, 151
FbaI TGATCA 1 cut(s) 399
FokI GGATG 1 cut(s) 395
FspBI CTAG 1 cut(s) 719
GlaI GCGC 2 cut(s) 161, 172
GsaI CCCAGC 1 cut(s) 46
GsuI CTGGAG 1 cut(s) 594
HaeII RGCGCY 1 cut(s) 174
HaeIII GGCC 1 cut(s) 547
HapII CCGG 1 cut(s) 563
HhaI GCGC 2 cut(s) 162, 173
Hin1II CATG 1 cut(s) 234
Hin6I GCGC 2 cut(s) 160, 171
HinP1I GCGC 2 cut(s) 160, 171
HinfI GANTC 5 cut(s) 142, 180, 258, 436, 677
HpaII CCGG 1 cut(s) 563
HphI GGTGA 3 cut(s) 137, 309, 611
Hpy166II GTNNAC 2 cut(s) 706, 716
Hpy188I TCNGA 4 cut(s) 105, 189, 255, 682
Hpy188III TCNNGA 2 cut(s) 287, 741
Hpy8I GTNNAC 2 cut(s) 706, 716
HpyAV CCTTC 3 cut(s) 194, 287, 528
HpyCH4III ACNGT 4 cut(s) 28, 139, 362, 725
HpyCH4V TGCA 2 cut(s) 155, 167
HpyF10VI GCNNNNNNNGC 2 cut(s) 168, 641
HpyF3I CTNAG 3 cut(s) 254, 390, 739
Hsp92II CATG 1 cut(s) 234
HspAI GCGC 2 cut(s) 160, 171
Ksp22I TGATCA 1 cut(s) 399
Kzo9I GATC 2 cut(s) 399, 734
LweI GCATC 1 cut(s) 43
MaeI CTAG 1 cut(s) 719
MaeIII GTNAC 2 cut(s) 97, 415
MalI GATC 2 cut(s) 401, 736
MboI GATC 2 cut(s) 399, 734
MboII GAAGA 6 cut(s) 75, 118, 302, 437, 614, 744
MfeI CAATTG 1 cut(s) 699
MflI RGATCY 1 cut(s) 734
MhlI GDGCHC 2 cut(s) 38, 79
MluCI AATT 4 cut(s) 122, 243, 669, 699
MlyI GAGTC 2 cut(s) 189, 686
MnlI CCTC 4 cut(s) 514, 590, 737, 748
MseI TTAA 2 cut(s) 30, 71
MslI CAYNNNNRTG 3 cut(s) 84, 150, 221
MspI CCGG 1 cut(s) 563
MspR9I CCNGG 2 cut(s) 563, 573
MunI CAATTG 1 cut(s) 699
Mva1269I GAATGC 1 cut(s) 91
MvaI CCWGG 1 cut(s) 573
MwoI GCNNNNNNNGC 2 cut(s) 168, 641
NciI CCSGG 1 cut(s) 563
NdeI CATATG 2 cut(s) 81, 151
NdeII GATC 2 cut(s) 399, 734
NlaIII CATG 1 cut(s) 234
NmuCI GTSAC 1 cut(s) 415
OliI CACNNNNGTG 1 cut(s) 221
PctI GAATGC 1 cut(s) 91
PfeI GAWTC 3 cut(s) 142, 258, 436
PflMI CCANNNNNTGG 1 cut(s) 593
PleI GAGTC 2 cut(s) 188, 685
PpsI GAGTC 2 cut(s) 188, 685
Psp6I CCWGG 1 cut(s) 571
PspFI CCCAGC 1 cut(s) 42
PspGI CCWGG 1 cut(s) 571
PspPI GGNCC 1 cut(s) 546
PsuI RGATCY 1 cut(s) 734
RsaI GTAC 6 cut(s) 314, 411, 453, 611, 715, 727
RsaNI GTAC 6 cut(s) 313, 410, 452, 610, 714, 726
RseI CAYNNNNRTG 3 cut(s) 84, 150, 221
SaqAI TTAA 2 cut(s) 30, 71
Sau3AI GATC 2 cut(s) 399, 734
Sau96I GGNCC 1 cut(s) 546
SchI GAGTC 2 cut(s) 189, 686
ScrFI CCNGG 2 cut(s) 563, 573
SduI GDGCHC 2 cut(s) 38, 79
SetI ASST 3 cut(s) 391, 457, 601
SfaNI GCATC 1 cut(s) 43
SmiMI CAYNNNNRTG 3 cut(s) 84, 150, 221
SmlI CTYRAG 1 cut(s) 377
SmoI CTYRAG 1 cut(s) 377
Sse9I AATT 4 cut(s) 122, 243, 669, 699
SspMI CTAG 1 cut(s) 719
StyD4I CCNGG 2 cut(s) 561, 571
StyI CCWWGG 1 cut(s) 175
TaaI ACNGT 4 cut(s) 28, 139, 362, 725
TaqI TCGA 1 cut(s) 134
TasI AATT 4 cut(s) 122, 243, 669, 699
TatI WGTACW 1 cut(s) 609
TfiI GAWTC 3 cut(s) 142, 258, 436
Tru1I TTAA 2 cut(s) 30, 71
Tru9I TTAA 2 cut(s) 30, 71
TscAI CASTG 2 cut(s) 367, 420
TseFI GTSAC 1 cut(s) 415
Tsp45I GTSAC 1 cut(s) 415
TspDTI ATGAA 1 cut(s) 98
TspRI CASTG 2 cut(s) 367, 420
Van91I CCANNNNNTGG 1 cut(s) 593
XapI RAATTY 1 cut(s) 122
XspI CTAG 1 cut(s) 719
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.