RchiOBHm_Chr5g0035081

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0006038
Physical Location & Seq
Reverse (-)
28997538 .. 28998982
1445 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31400

Sequence Viewer

Length: 771 bp
ATGCAAAGCCGAGTGAGAAATCGAAAACCAAATTGCAATGGCCCTGGGTCAGCATGCCTGGACCCTCGCTTCATTGGTGGTGATGGCATTGTTTTTTACTTCCATGGCAAGAAAAACGAGCATTTCAGCTTAGTTTCCGATCCCAACCTCCAAATCAATGATCGCTTCATTGGTCTCCGCCCTGAAGGCCGAAGCAGGGACTATACCTGGATTCAAGCCCTTGGACTCCTCTTCGATTCGAACAGCTTCACACTCGAGGCCACCCCATCAGCAACATGGGACGATGAGATTGACCACTTGAAGTTCTCTTACAATGGTGTGGACCGTGAAACTTCTATTAGAGTGGAGAGGGCTTCGAGCAAGAACAGTGTCTTAGTCACCCTCCCAGAAGTAGCTGAAATTTCAGTCAATGTGGTACCTGTGACAAAGGAAGATGATAAGATCCACAATTATCAGATACCATCAGATGACTGTTTTGCTCACCTGGAAGTACAGTTCAGATTCTACGGTCTGTCATCAAATGTTGAAGGAGTACTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGGCTGGAGTAGCCATGCCGGTAGTTGGAGGTGAATACAAGTACAAAACAACATCACTTGTCTCTGCGGATTGTTTTGCTTGTGTGTTCACTCAGGCCGGGATGTTGGATCAGACGGATTCAAGAGTGATGGATTACGGAAAGCTAGACTGCACCGGTAACACCTTCAGTGGGAATGGAATAGTTTACAGGAAGTAA
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

28.54

Weight (kDa)

5.76

Isoelectric Point (pI)

27.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 165 - 221 7.4e-26 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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 415
AccB1I GGYRCC 1 cut(s) 415
AciI CCGC 2 cut(s) 178, 641
AclWI GGATC 3 cut(s) 134, 436, 690
AcsI RAATTY 1 cut(s) 399
AcuI CTGAAG 2 cut(s) 204, 724
AfaI GTAC 4 cut(s) 417, 492, 534, 617
AfiI CCNNNNNNNGG 4 cut(s) 196, 574, 599, 744
AgeI ACCGGT 1 cut(s) 728
AgsI TTSAA 5 cut(s) 215, 301, 527, 562, 696
AjnI CCWGG 4 cut(s) 43, 57, 206, 483
AjuI GAANNNNNNNTTGG 2 cut(s) 519, 551
AloI GAACNNNNNNTCC 2 cut(s) 479, 511
AluBI AGCT 4 cut(s) 129, 246, 395, 718
AluI AGCT 4 cut(s) 129, 246, 395, 718
Alw26I GTCTC 2 cut(s) 179, 640
AlwI GGATC 3 cut(s) 134, 436, 690
Ama87I CYCGRG 1 cut(s) 254
AoxI GGCC 4 cut(s) 40, 187, 258, 669
ApoI RAATTY 1 cut(s) 399
AsiGI ACCGGT 1 cut(s) 728
Asp700I GAANNNNTTC 1 cut(s) 245
Asp718I GGTACC 1 cut(s) 415
AspS9I GGNCC 3 cut(s) 41, 61, 322
AsuC2I CCSGG 2 cut(s) 569, 673
AsuHPI GGTGA 4 cut(s) 92, 370, 473, 617
AsuII TTCGAA 1 cut(s) 239
AvaI CYCGRG 1 cut(s) 254
AvaII GGWCC 2 cut(s) 61, 322
BanI GGYRCC 1 cut(s) 415
BarI GAAGNNNNNNTAC 2 cut(s) 293, 325
BccI CCATC 4 cut(s) 77, 274, 469, 697
BciT130I CCWGG 4 cut(s) 45, 59, 208, 485
BcnI CCSGG 2 cut(s) 569, 673
BcoDI GTCTC 2 cut(s) 179, 640
BfaI CTAG 1 cut(s) 719
BglI GCCNNNNNGGC 1 cut(s) 186
BmcAI AGTACT 1 cut(s) 534
Bme1390I CCNGG 6 cut(s) 45, 59, 208, 485, 569, 673
Bme18I GGWCC 2 cut(s) 61, 322
BmeT110I CYCGRG 1 cut(s) 254
BmgT120I GGNCC 3 cut(s) 41, 61, 322
BmiI GGNNCC 2 cut(s) 63, 417
BmrFI CCNGG 6 cut(s) 45, 59, 208, 485, 569, 673
BpmI CTGGAG 1 cut(s) 600
Bpu14I TTCGAA 1 cut(s) 239
BpuMI CCSGG 2 cut(s) 569, 673
BsaI GGTCTC 1 cut(s) 179
BsaJI CCNNGG 4 cut(s) 43, 44, 103, 220
BsaWI WCCGGW 1 cut(s) 728
Bsc4I CCNNNNNNNGG 4 cut(s) 196, 574, 599, 744
Bse118I RCCGGY 2 cut(s) 592, 728
Bse3DI GCAATG 1 cut(s) 43
BseBI CCWGG 4 cut(s) 45, 59, 208, 485
BseDI CCNNGG 4 cut(s) 43, 44, 103, 220
BseGI GGATG 1 cut(s) 681
BseLI CCNNNNNNNGG 4 cut(s) 196, 574, 599, 744
BseMI GCAATG 1 cut(s) 43
BseMII CTCAG 1 cut(s) 680
BseRI GAGGAG 1 cut(s) 218
BsgI GTGCAG 1 cut(s) 709
BshFI GGCC 4 cut(s) 42, 189, 260, 671
BshNI GGYRCC 1 cut(s) 415
BshTI ACCGGT 1 cut(s) 728
BsiHKCI CYCGRG 1 cut(s) 254
BsiSI CCGG 4 cut(s) 569, 593, 672, 729
BslFI GGGAC 2 cut(s) 212, 293
BslI CCNNNNNNNGG 4 cut(s) 196, 574, 599, 744
BsmAI GTCTC 2 cut(s) 179, 640
BsmFI GGGAC 2 cut(s) 212, 293
BsnI GGCC 4 cut(s) 42, 189, 260, 671
Bso31I GGTCTC 1 cut(s) 179
BsoBI CYCGRG 1 cut(s) 254
Bsp119I TTCGAA 1 cut(s) 239
Bsp143I GATC 4 cut(s) 139, 160, 441, 682
Bsp19I CCATGG 1 cut(s) 103
BspACI CCGC 2 cut(s) 178, 641
BspANI GGCC 4 cut(s) 42, 189, 260, 671
BspCNI CTCAG 1 cut(s) 679
BspLI GGNNCC 2 cut(s) 63, 417
BspPI GGATC 3 cut(s) 134, 436, 690
BspT104I TTCGAA 1 cut(s) 239
BspT107I GGYRCC 1 cut(s) 415
BspTNI GGTCTC 1 cut(s) 179
BsrDI GCAATG 1 cut(s) 43
BsrFI RCCGGY 2 cut(s) 592, 728
BssAI RCCGGY 2 cut(s) 592, 728
BssECI CCNNGG 4 cut(s) 43, 44, 103, 220
BssMI GATC 4 cut(s) 139, 160, 441, 682
BssT1I CCWWGG 2 cut(s) 103, 220
Bst2UI CCWGG 4 cut(s) 45, 59, 208, 485
Bst4CI ACNGT 5 cut(s) 326, 368, 473, 495, 509
Bst6I CTCTTC 1 cut(s) 236
BstBI TTCGAA 1 cut(s) 239
BstC8I GCNNGC 1 cut(s) 55
BstDEI CTNAG 3 cut(s) 130, 373, 666
BstDSI CCRYGG 1 cut(s) 103
BstF5I GGATG 1 cut(s) 681
BstKTI GATC 4 cut(s) 142, 163, 444, 685
BstMAI GTCTC 2 cut(s) 179, 640
BstMBI GATC 4 cut(s) 139, 160, 441, 682
BstMWI GCNNNNNNNGC 2 cut(s) 186, 584
BstNI CCWGG 4 cut(s) 45, 59, 208, 485
BstNSI RCATGY 1 cut(s) 57
BstSCI CCNGG 6 cut(s) 43, 57, 206, 483, 567, 671
BstX2I RGATCY 1 cut(s) 441
BstYI RGATCY 1 cut(s) 441
BsuRI GGCC 4 cut(s) 42, 189, 260, 671
BtgI CCRYGG 1 cut(s) 103
BtsCI GGATG 1 cut(s) 681
BtsIMutI CAGTG 2 cut(s) 373, 748
Cac8I GCNNGC 1 cut(s) 55
Cfr10I RCCGGY 2 cut(s) 592, 728
Cfr13I GGNCC 3 cut(s) 41, 61, 322
Csp6I GTAC 4 cut(s) 416, 491, 533, 616
CspAI ACCGGT 1 cut(s) 728
CviAII CATG 4 cut(s) 54, 104, 276, 589
CviQI GTAC 4 cut(s) 416, 491, 533, 616
DdeI CTNAG 3 cut(s) 130, 373, 666
DpnI GATC 4 cut(s) 141, 162, 443, 684
DpnII GATC 4 cut(s) 139, 160, 441, 682
Eam1104I CTCTTC 1 cut(s) 236
EarI CTCTTC 1 cut(s) 236
EciI GGCGGA 1 cut(s) 167
Eco130I CCWWGG 2 cut(s) 103, 220
Eco31I GGTCTC 1 cut(s) 179
Eco47I GGWCC 2 cut(s) 61, 322
Eco57I CTGAAG 2 cut(s) 204, 724
Eco88I CYCGRG 1 cut(s) 254
EcoRII CCWGG 4 cut(s) 43, 57, 206, 483
EcoT14I CCWWGG 2 cut(s) 103, 220
ErhI CCWWGG 2 cut(s) 103, 220
FaeI CATG 4 cut(s) 57, 107, 279, 592
FaiI YATR 5 cut(s) 55, 105, 204, 277, 590
FalI AAGNNNNNCTT 2 cut(s) 519, 551
FaqI GGGAC 2 cut(s) 212, 293
FatI CATG 4 cut(s) 53, 103, 275, 588
FokI GGATG 1 cut(s) 688
FspBI CTAG 1 cut(s) 719
GsuI CTGGAG 1 cut(s) 600
HaeIII GGCC 4 cut(s) 42, 189, 260, 671
HapII CCGG 4 cut(s) 569, 593, 672, 729
Hin1II CATG 4 cut(s) 57, 107, 279, 592
HinfI GANTC 5 cut(s) 211, 225, 236, 501, 692
HpaII CCGG 4 cut(s) 569, 593, 672, 729
HphI GGTGA 4 cut(s) 92, 370, 473, 617
Hpy166II GTNNAC 3 cut(s) 322, 663, 760
Hpy188I TCNGA 5 cut(s) 139, 456, 466, 500, 687
Hpy188III TCNNGA 2 cut(s) 562, 696
Hpy8I GTNNAC 3 cut(s) 322, 663, 760
HpyAV CCTTC 4 cut(s) 179, 521, 534, 748
HpyCH4III ACNGT 5 cut(s) 326, 368, 473, 495, 509
HpyCH4V TGCA 3 cut(s) 4, 36, 726
HpyF10VI GCNNNNNNNGC 2 cut(s) 186, 584
HpyF3I CTNAG 3 cut(s) 130, 373, 666
Hsp92II CATG 4 cut(s) 57, 107, 279, 592
KpnI GGTACC 1 cut(s) 419
Kzo9I GATC 4 cut(s) 139, 160, 441, 682
MaeI CTAG 1 cut(s) 719
MaeIII GTNAC 3 cut(s) 376, 421, 731
MalI GATC 4 cut(s) 141, 162, 443, 684
MboI GATC 4 cut(s) 139, 160, 441, 682
MboII GAAGA 2 cut(s) 223, 443
MflI RGATCY 1 cut(s) 441
MluCI AATT 3 cut(s) 31, 399, 448
MlyI GAGTC 1 cut(s) 219
MmeI TCCRAC 2 cut(s) 580, 660
MnlI CCTC 7 cut(s) 75, 158, 239, 250, 342, 392, 596
MroXI GAANNNNTTC 1 cut(s) 245
MspI CCGG 4 cut(s) 569, 593, 672, 729
MspR9I CCNGG 6 cut(s) 45, 59, 208, 485, 569, 673
MvaI CCWGG 4 cut(s) 45, 59, 208, 485
MwoI GCNNNNNNNGC 2 cut(s) 186, 584
NciI CCSGG 2 cut(s) 569, 673
NcoI CCATGG 1 cut(s) 103
NdeII GATC 4 cut(s) 139, 160, 441, 682
NlaIII CATG 4 cut(s) 57, 107, 279, 592
NlaIV GGNNCC 2 cut(s) 63, 417
NmeAIII GCCGAG 1 cut(s) 35
NmuCI GTSAC 2 cut(s) 376, 421
NspI RCATGY 1 cut(s) 57
NspV TTCGAA 1 cut(s) 239
PaeI GCATGC 1 cut(s) 57
PaeR7I CTCGAG 1 cut(s) 254
PasI CCCWGGG 1 cut(s) 44
PdmI GAANNNNTTC 1 cut(s) 245
PfeI GAWTC 4 cut(s) 211, 236, 501, 692
PinAI ACCGGT 1 cut(s) 728
PleI GAGTC 1 cut(s) 219
PpsI GAGTC 1 cut(s) 219
Psp6I CCWGG 4 cut(s) 43, 57, 206, 483
PspGI CCWGG 4 cut(s) 43, 57, 206, 483
PspN4I GGNNCC 2 cut(s) 63, 417
PspPI GGNCC 3 cut(s) 41, 61, 322
PspXI VCTCGAGB 1 cut(s) 254
PsuI RGATCY 1 cut(s) 441
RsaI GTAC 4 cut(s) 417, 492, 534, 617
RsaNI GTAC 4 cut(s) 416, 491, 533, 616
Sau3AI GATC 4 cut(s) 139, 160, 441, 682
Sau96I GGNCC 3 cut(s) 41, 61, 322
ScaI AGTACT 1 cut(s) 534
SchI GAGTC 1 cut(s) 219
ScrFI CCNGG 6 cut(s) 45, 59, 208, 485, 569, 673
Sfr274I CTCGAG 1 cut(s) 254
SfuI TTCGAA 1 cut(s) 239
SinI GGWCC 2 cut(s) 61, 322
SlaI CTCGAG 1 cut(s) 254
SmlI CTYRAG 1 cut(s) 254
SmoI CTYRAG 1 cut(s) 254
SphI GCATGC 1 cut(s) 57
Sse9I AATT 3 cut(s) 31, 399, 448
SsiI CCGC 2 cut(s) 178, 641
SspMI CTAG 1 cut(s) 719
StyD4I CCNGG 6 cut(s) 43, 57, 206, 483, 567, 671
StyI CCWWGG 2 cut(s) 103, 220
TaaI ACNGT 5 cut(s) 326, 368, 473, 495, 509
TaqI TCGA 5 cut(s) 22, 234, 239, 255, 356
TasI AATT 3 cut(s) 31, 399, 448
TatI WGTACW 3 cut(s) 490, 532, 615
TfiI GAWTC 4 cut(s) 211, 236, 501, 692
TscAI CASTG 2 cut(s) 373, 748
TseFI GTSAC 2 cut(s) 376, 421
Tsp45I GTSAC 2 cut(s) 376, 421
TspDTI ATGAA 2 cut(s) 61, 157
TspGWI ACGGA 2 cut(s) 704, 726
TspRI CASTG 2 cut(s) 373, 748
VpaK11BI GGWCC 2 cut(s) 61, 322
XapI RAATTY 1 cut(s) 399
XceI RCATGY 1 cut(s) 57
XcmI CCANNNNNNNNNTGG 1 cut(s) 273
XhoI CTCGAG 1 cut(s) 254
XmnI GAANNNNTTC 1 cut(s) 245
XspI CTAG 1 cut(s) 719
ZrmI AGTACT 1 cut(s) 534
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.