Rmu_sc0000879.1_g000027

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000879.1
OG0006038
Physical Location & Seq
Forward (+)
73595 .. 75882
2288 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 684 bp
atggactacaggaaatggtttagaatgcgaagagacaaatttgaaataaaaaacgaaggtcagacggacgaatttagcagcttagtttccgatcccaacctccaaatcaatgctcgcttcattggtctccgccctgaaggccgaagcagggactatacctggattcaagcccttggactcctcttcgattcgaacagcttcacactcgaggccaccccatcagcaacatgggacgatgagattgaccacttgaaagtggagaggacttcgagcaagaacagtgtcttagtcactctcccagaagttgctgaaatttcagtcaatgtggtacctgtgacaaaggaagatgataagatccacaattatcaaataccatcggatgactgttttgctcacctggaagcacagttcagattctacggtctgtcatcaaatgttgaaggagtacttggaaggacttaccagccagatttcaagaacccggcaaaggctggagtagccatgccggtagttggaggtgaatacaagtacaaaacaacatcactggtctctgcggattgttttgcttgtgtgttcacccaggccgggatgttggatcagacggattcaagagtgatggattacggaaagctagactgcaccggtaacaccttcagtgggaatggaatagtttgcaggaagtaa
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

227

Amino Acids

25.57

Weight (kDa)

5.17

Isoelectric Point (pI)

30.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 136 - 192 6e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 328
AccB1I GGYRCC 1 cut(s) 328
AciI CCGC 2 cut(s) 130, 554
AclWI GGATC 3 cut(s) 86, 349, 603
AcsI RAATTY 3 cut(s) 38, 71, 312
AcuI CTGAAG 2 cut(s) 156, 637
AfaI GTAC 3 cut(s) 330, 447, 530
AfiI CCNNNNNNNGG 5 cut(s) 148, 487, 512, 585, 657
AgeI ACCGGT 1 cut(s) 641
AgsI TTSAA 6 cut(s) 44, 167, 253, 440, 475, 609
AjnI CCWGG 3 cut(s) 158, 396, 579
AjuI GAANNNNNNNTTGG 2 cut(s) 432, 464
AloI GAACNNNNNNTCC 2 cut(s) 392, 424
AluBI AGCT 3 cut(s) 81, 198, 631
AluI AGCT 3 cut(s) 81, 198, 631
Alw26I GTCTC 3 cut(s) 27, 131, 553
AlwI GGATC 3 cut(s) 86, 349, 603
Ama87I CYCGRG 1 cut(s) 206
AoxI GGCC 3 cut(s) 139, 210, 582
ApeKI GCWGC 1 cut(s) 78
ApoI RAATTY 3 cut(s) 38, 71, 312
AsiGI ACCGGT 1 cut(s) 641
Asp700I GAANNNNTTC 1 cut(s) 197
Asp718I GGTACC 1 cut(s) 328
AsuC2I CCSGG 2 cut(s) 482, 586
AsuHPI GGTGA 3 cut(s) 386, 530, 568
AsuII TTCGAA 1 cut(s) 191
AvaI CYCGRG 1 cut(s) 206
BanI GGYRCC 1 cut(s) 328
BbvI GCAGC 1 cut(s) 90
BccI CCATC 3 cut(s) 226, 382, 610
BciT130I CCWGG 3 cut(s) 160, 398, 581
BcnI CCSGG 2 cut(s) 482, 586
BcoDI GTCTC 3 cut(s) 27, 131, 553
BfaI CTAG 1 cut(s) 632
BfmI CTRYAG 1 cut(s) 7
BglI GCCNNNNNGGC 1 cut(s) 138
BisI GCNGC 1 cut(s) 79
BlsI GCNGC 1 cut(s) 80
BmcAI AGTACT 1 cut(s) 447
Bme1390I CCNGG 5 cut(s) 160, 398, 482, 581, 586
BmeT110I CYCGRG 1 cut(s) 206
BmiI GGNNCC 1 cut(s) 330
BmrFI CCNGG 5 cut(s) 160, 398, 482, 581, 586
BpmI CTGGAG 1 cut(s) 513
Bpu14I TTCGAA 1 cut(s) 191
BpuMI CCSGG 2 cut(s) 482, 586
BsaI GGTCTC 2 cut(s) 131, 553
BsaJI CCNNGG 2 cut(s) 172, 579
BsaWI WCCGGW 1 cut(s) 641
Bsc4I CCNNNNNNNGG 5 cut(s) 148, 487, 512, 585, 657
Bse118I RCCGGY 2 cut(s) 505, 641
Bse1I ACTGG 1 cut(s) 549
BseBI CCWGG 3 cut(s) 160, 398, 581
BseDI CCNNGG 2 cut(s) 172, 579
BseGI GGATG 2 cut(s) 385, 594
BseLI CCNNNNNNNGG 5 cut(s) 148, 487, 512, 585, 657
BseNI ACTGG 1 cut(s) 549
BseRI GAGGAG 1 cut(s) 170
BseXI GCAGC 1 cut(s) 90
BsgI GTGCAG 1 cut(s) 622
BshFI GGCC 3 cut(s) 141, 212, 584
BshNI GGYRCC 1 cut(s) 328
BshTI ACCGGT 1 cut(s) 641
BsiHKCI CYCGRG 1 cut(s) 206
BsiSI CCGG 4 cut(s) 482, 506, 585, 642
BslFI GGGAC 2 cut(s) 164, 245
BslI CCNNNNNNNGG 5 cut(s) 148, 487, 512, 585, 657
BsmAI GTCTC 3 cut(s) 27, 131, 553
BsmFI GGGAC 2 cut(s) 164, 245
BsmI GAATGC 1 cut(s) 30
BsnI GGCC 3 cut(s) 141, 212, 584
Bso31I GGTCTC 2 cut(s) 131, 553
BsoBI CYCGRG 1 cut(s) 206
Bsp119I TTCGAA 1 cut(s) 191
Bsp143I GATC 3 cut(s) 91, 354, 595
BspACI CCGC 2 cut(s) 130, 554
BspANI GGCC 3 cut(s) 141, 212, 584
BspLI GGNNCC 1 cut(s) 330
BspPI GGATC 3 cut(s) 86, 349, 603
BspT104I TTCGAA 1 cut(s) 191
BspT107I GGYRCC 1 cut(s) 328
BspTNI GGTCTC 2 cut(s) 131, 553
BsrFI RCCGGY 2 cut(s) 505, 641
BsrI ACTGG 1 cut(s) 549
BssAI RCCGGY 2 cut(s) 505, 641
BssECI CCNNGG 2 cut(s) 172, 579
BssMI GATC 3 cut(s) 91, 354, 595
BssT1I CCWWGG 1 cut(s) 172
Bst2UI CCWGG 3 cut(s) 160, 398, 581
Bst4CI ACNGT 4 cut(s) 281, 386, 408, 422
Bst6I CTCTTC 2 cut(s) 25, 188
BstBI TTCGAA 1 cut(s) 191
BstC8I GCNNGC 1 cut(s) 115
BstDEI CTNAG 2 cut(s) 82, 286
BstF5I GGATG 2 cut(s) 385, 594
BstKTI GATC 3 cut(s) 94, 357, 598
BstMAI GTCTC 3 cut(s) 27, 131, 553
BstMBI GATC 3 cut(s) 91, 354, 595
BstMWI GCNNNNNNNGC 2 cut(s) 138, 497
BstNI CCWGG 3 cut(s) 160, 398, 581
BstSCI CCNGG 5 cut(s) 158, 396, 480, 579, 584
BstSFI CTRYAG 1 cut(s) 7
BstV1I GCAGC 1 cut(s) 90
BstX2I RGATCY 1 cut(s) 354
BstYI RGATCY 1 cut(s) 354
BsuRI GGCC 3 cut(s) 141, 212, 584
BtsCI GGATG 2 cut(s) 385, 594
BtsIMutI CAGTG 3 cut(s) 286, 542, 661
Cac8I GCNNGC 1 cut(s) 115
Cfr10I RCCGGY 2 cut(s) 505, 641
Csp6I GTAC 3 cut(s) 329, 446, 529
CspAI ACCGGT 1 cut(s) 641
CviAII CATG 2 cut(s) 228, 502
CviQI GTAC 3 cut(s) 329, 446, 529
DdeI CTNAG 2 cut(s) 82, 286
DpnI GATC 3 cut(s) 93, 356, 597
DpnII GATC 3 cut(s) 91, 354, 595
Eam1104I CTCTTC 2 cut(s) 25, 188
EarI CTCTTC 2 cut(s) 25, 188
EciI GGCGGA 1 cut(s) 119
Eco130I CCWWGG 1 cut(s) 172
Eco31I GGTCTC 2 cut(s) 131, 553
Eco57I CTGAAG 2 cut(s) 156, 637
Eco88I CYCGRG 1 cut(s) 206
EcoRII CCWGG 3 cut(s) 158, 396, 579
EcoT14I CCWWGG 1 cut(s) 172
ErhI CCWWGG 1 cut(s) 172
FaeI CATG 2 cut(s) 231, 505
FaiI YATR 3 cut(s) 156, 229, 503
FalI AAGNNNNNCTT 2 cut(s) 432, 464
FaqI GGGAC 2 cut(s) 164, 245
FatI CATG 2 cut(s) 227, 501
Fnu4HI GCNGC 1 cut(s) 79
FokI GGATG 2 cut(s) 392, 601
Fsp4HI GCNGC 1 cut(s) 79
FspBI CTAG 1 cut(s) 632
GluI GCNGC 1 cut(s) 79
GsuI CTGGAG 1 cut(s) 513
HaeIII GGCC 3 cut(s) 141, 212, 584
HapII CCGG 4 cut(s) 482, 506, 585, 642
Hin1II CATG 2 cut(s) 231, 505
HinfI GANTC 5 cut(s) 163, 177, 188, 414, 605
HpaII CCGG 4 cut(s) 482, 506, 585, 642
HphI GGTGA 3 cut(s) 386, 530, 568
Hpy166II GTNNAC 1 cut(s) 576
Hpy188I TCNGA 5 cut(s) 63, 91, 379, 413, 600
Hpy188III TCNNGA 2 cut(s) 475, 609
Hpy8I GTNNAC 1 cut(s) 576
HpyAV CCTTC 5 cut(s) 50, 131, 434, 447, 661
HpyCH4III ACNGT 4 cut(s) 281, 386, 408, 422
HpyCH4V TGCA 2 cut(s) 639, 675
HpyF10VI GCNNNNNNNGC 2 cut(s) 138, 497
HpyF3I CTNAG 2 cut(s) 82, 286
Hsp92II CATG 2 cut(s) 231, 505
KpnI GGTACC 1 cut(s) 332
Kzo9I GATC 3 cut(s) 91, 354, 595
Lsp1109I GCAGC 1 cut(s) 90
MaeI CTAG 1 cut(s) 632
MaeIII GTNAC 3 cut(s) 289, 334, 644
MalI GATC 3 cut(s) 93, 356, 597
MboI GATC 3 cut(s) 91, 354, 595
MboII GAAGA 3 cut(s) 42, 175, 356
MflI RGATCY 1 cut(s) 354
MluCI AATT 4 cut(s) 38, 71, 312, 361
MlyI GAGTC 1 cut(s) 171
MmeI TCCRAC 2 cut(s) 493, 573
MnlI CCTC 5 cut(s) 110, 191, 202, 255, 509
MroXI GAANNNNTTC 1 cut(s) 197
MspI CCGG 4 cut(s) 482, 506, 585, 642
MspR9I CCNGG 5 cut(s) 160, 398, 482, 581, 586
Mva1269I GAATGC 1 cut(s) 30
MvaI CCWGG 3 cut(s) 160, 398, 581
MwoI GCNNNNNNNGC 2 cut(s) 138, 497
NciI CCSGG 2 cut(s) 482, 586
NdeII GATC 3 cut(s) 91, 354, 595
NlaIII CATG 2 cut(s) 231, 505
NlaIV GGNNCC 1 cut(s) 330
NmuCI GTSAC 2 cut(s) 289, 334
NspV TTCGAA 1 cut(s) 191
PaeR7I CTCGAG 1 cut(s) 206
PctI GAATGC 1 cut(s) 30
PdmI GAANNNNTTC 1 cut(s) 197
PfeI GAWTC 4 cut(s) 163, 188, 414, 605
PinAI ACCGGT 1 cut(s) 641
PkrI GCNGC 1 cut(s) 80
PleI GAGTC 1 cut(s) 171
PpsI GAGTC 1 cut(s) 171
Psp6I CCWGG 3 cut(s) 158, 396, 579
PspGI CCWGG 3 cut(s) 158, 396, 579
PspN4I GGNNCC 1 cut(s) 330
PspXI VCTCGAGB 1 cut(s) 206
PsuI RGATCY 1 cut(s) 354
RsaI GTAC 3 cut(s) 330, 447, 530
RsaNI GTAC 3 cut(s) 329, 446, 529
SatI GCNGC 1 cut(s) 79
Sau3AI GATC 3 cut(s) 91, 354, 595
ScaI AGTACT 1 cut(s) 447
SchI GAGTC 1 cut(s) 171
ScrFI CCNGG 5 cut(s) 160, 398, 482, 581, 586
SfcI CTRYAG 1 cut(s) 7
Sfr274I CTCGAG 1 cut(s) 206
SfuI TTCGAA 1 cut(s) 191
SlaI CTCGAG 1 cut(s) 206
SmlI CTYRAG 1 cut(s) 206
SmoI CTYRAG 1 cut(s) 206
Sse9I AATT 4 cut(s) 38, 71, 312, 361
SsiI CCGC 2 cut(s) 130, 554
SspMI CTAG 1 cut(s) 632
StyD4I CCNGG 5 cut(s) 158, 396, 480, 579, 584
StyI CCWWGG 1 cut(s) 172
TaaI ACNGT 4 cut(s) 281, 386, 408, 422
TaqI TCGA 4 cut(s) 186, 191, 207, 269
TasI AATT 4 cut(s) 38, 71, 312, 361
TatI WGTACW 2 cut(s) 445, 528
TfiI GAWTC 4 cut(s) 163, 188, 414, 605
TscAI CASTG 3 cut(s) 286, 549, 661
TseFI GTSAC 2 cut(s) 289, 334
TseI GCWGC 1 cut(s) 78
Tsp45I GTSAC 2 cut(s) 289, 334
TspDTI ATGAA 1 cut(s) 109
TspGWI ACGGA 3 cut(s) 80, 617, 639
TspRI CASTG 3 cut(s) 286, 549, 661
XapI RAATTY 3 cut(s) 38, 71, 312
XcmI CCANNNNNNNNNTGG 1 cut(s) 225
XhoI CTCGAG 1 cut(s) 206
XmnI GAANNNNTTC 1 cut(s) 197
XspI CTAG 1 cut(s) 632
ZrmI AGTACT 1 cut(s) 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.