Rw5G036660

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0002778
Physical Location & Seq
Forward (+)
64324989 .. 64326227
1239 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G036660.1

Sequence Viewer

Length: 1059 bp
ATGGCTACAATAAGAATGTCACATACATTGGTGGCCCTCCTTGTTGTGCTCGTTTCCATGGAAGCAATGTCCTTTGTTCTGGGCCAAGGCAATGGAAATGGCAATGGCAATAGTGGCAACGGTAAAGGCAATGGAAACGGGAATGGGAATGGCAATGACTACGATGAATTGTCACCGTTAGCATCCGGACAGGAGAGAGGCTTCTGTAAAGCAAAGAATGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAATACAAGGGTTGTTTCATCAACTGCGGCAACAAATGTGAAGTCACTTGCAAGTGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAAAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCAGTCAGTGTCCCCACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATAGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTCCAAAGGCAATCTGGACTTGCTCAATACTGA
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

352

Amino Acids

38.97

Weight (kDa)

8.72

Isoelectric Point (pI)

20.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 287 - 343 1.8e-29 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)
AasI GACNNNNNNGTC 1 cut(s) 776
Acc36I ACCTGC 1 cut(s) 1014
AccII CGCG 1 cut(s) 519
AccIII TCCGGA 1 cut(s) 185
AciI CCGC 2 cut(s) 312, 969
AclWI GGATC 2 cut(s) 377, 689
AcoI YGGCCR 1 cut(s) 687
AfaI GTAC 1 cut(s) 983
AfiI CCNNNNNNNGG 3 cut(s) 662, 678, 965
AgsI TTSAA 2 cut(s) 536, 713
AjnI CCWGG 1 cut(s) 919
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 2 cut(s) 595, 848
AlwI GGATC 2 cut(s) 377, 689
Aor13HI TCCGGA 1 cut(s) 185
AoxI GGCC 5 cut(s) 33, 82, 687, 782, 917
ApeKI GCWGC 1 cut(s) 578
ArsI GACNNNNNNTTYG 2 cut(s) 312, 344
AspS9I GGNCC 2 cut(s) 34, 82
AsuHPI GGTGA 4 cut(s) 165, 413, 650, 996
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 1 cut(s) 590
BccI CCATC 8 cut(s) 256, 398, 629, 656, 760, 835, 958, 1000
BciT130I CCWGG 1 cut(s) 921
BcoDI GTCTC 2 cut(s) 595, 848
BfaI CTAG 1 cut(s) 506
BfuAI ACCTGC 1 cut(s) 1014
BisI GCNGC 2 cut(s) 313, 579
BlsI GCNGC 2 cut(s) 314, 580
Bme1390I CCNGG 1 cut(s) 921
BmgT120I GGNCC 2 cut(s) 34, 82
BmiI GGNNCC 2 cut(s) 430, 1028
BmrFI CCNGG 1 cut(s) 921
BmsI GCATC 2 cut(s) 191, 945
BoxI GACNNNNGTC 1 cut(s) 239
BsaAI YACGTR 1 cut(s) 736
BsaJI CCNNGG 4 cut(s) 57, 85, 386, 424
BsaWI WCCGGW 1 cut(s) 185
Bsc4I CCNNNNNNNGG 3 cut(s) 662, 678, 965
Bse1I ACTGG 1 cut(s) 935
Bse3DI GCAATG 5 cut(s) 72, 97, 109, 136, 160
BseAI TCCGGA 1 cut(s) 185
BseBI CCWGG 1 cut(s) 921
BseDI CCNNGG 4 cut(s) 57, 85, 386, 424
BseGI GGATG 3 cut(s) 182, 607, 640
BseLI CCNNNNNNNGG 3 cut(s) 662, 678, 965
BseMI GCAATG 5 cut(s) 72, 97, 109, 136, 160
BseMII CTCAG 1 cut(s) 275
BseNI ACTGG 1 cut(s) 935
BseXI GCAGC 1 cut(s) 590
Bsh1236I CGCG 1 cut(s) 519
BshFI GGCC 5 cut(s) 35, 84, 689, 784, 919
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 1 cut(s) 186
BslFI GGGAC 1 cut(s) 638
BslI CCNNNNNNNGG 3 cut(s) 662, 678, 965
BsmAI GTCTC 2 cut(s) 595, 848
BsmFI GGGAC 1 cut(s) 638
BsmI GAATGC 2 cut(s) 223, 260
BsnI GGCC 5 cut(s) 35, 84, 689, 784, 919
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 185
Bsp143I GATC 3 cut(s) 382, 681, 883
Bsp19I CCATGG 2 cut(s) 57, 424
Bsp68I TCGCGA 1 cut(s) 519
BspACI CCGC 2 cut(s) 312, 969
BspANI GGCC 5 cut(s) 35, 84, 689, 784, 919
BspCNI CTCAG 1 cut(s) 274
BspEI TCCGGA 1 cut(s) 185
BspFNI CGCG 1 cut(s) 519
BspLI GGNNCC 2 cut(s) 430, 1028
BspMI ACCTGC 1 cut(s) 1014
BspPI GGATC 2 cut(s) 377, 689
BsrDI GCAATG 5 cut(s) 72, 97, 109, 136, 160
BsrI ACTGG 1 cut(s) 935
BssECI CCNNGG 4 cut(s) 57, 85, 386, 424
BssMI GATC 3 cut(s) 382, 681, 883
BssT1I CCWWGG 4 cut(s) 57, 85, 386, 424
Bst2UI CCWGG 1 cut(s) 921
Bst4CI ACNGT 3 cut(s) 122, 177, 748
Bst6I CTCTTC 1 cut(s) 691
BstAPI GCANNNNNTGC 2 cut(s) 218, 1020
BstBAI YACGTR 1 cut(s) 736
BstC8I GCNNGC 1 cut(s) 223
BstDEI CTNAG 2 cut(s) 261, 850
BstDSI CCRYGG 2 cut(s) 57, 424
BstF5I GGATG 3 cut(s) 182, 607, 640
BstFNI CGCG 1 cut(s) 519
BstKTI GATC 3 cut(s) 385, 684, 886
BstMAI GTCTC 2 cut(s) 595, 848
BstMBI GATC 3 cut(s) 382, 681, 883
BstMWI GCNNNNNNNGC 3 cut(s) 114, 218, 1020
BstNI CCWGG 1 cut(s) 921
BstPAI GACNNNNGTC 1 cut(s) 239
BstSCI CCNGG 1 cut(s) 919
BstSNI TACGTA 1 cut(s) 736
BstUI CGCG 1 cut(s) 519
BstV1I GCAGC 1 cut(s) 590
BstXI CCANNNNNNTGG 1 cut(s) 92
BsuRI GGCC 5 cut(s) 35, 84, 689, 784, 919
BtgI CCRYGG 2 cut(s) 57, 424
BtsCI GGATG 3 cut(s) 182, 607, 640
BtsIMutI CAGTG 2 cut(s) 655, 657
BtuMI TCGCGA 1 cut(s) 519
BveI ACCTGC 1 cut(s) 1014
Cac8I GCNNGC 1 cut(s) 223
Cfr13I GGNCC 2 cut(s) 34, 82
CseI GACGC 1 cut(s) 623
Csp6I GTAC 1 cut(s) 982
CviAII CATG 6 cut(s) 58, 425, 528, 550, 622, 685
CviQI GTAC 1 cut(s) 982
DdeI CTNAG 2 cut(s) 261, 850
DpnI GATC 3 cut(s) 384, 683, 885
DpnII GATC 3 cut(s) 382, 681, 883
DrdI GACNNNNNNGTC 1 cut(s) 776
DseDI GACNNNNNNGTC 1 cut(s) 776
EaeI YGGCCR 1 cut(s) 687
Eam1104I CTCTTC 1 cut(s) 691
EarI CTCTTC 1 cut(s) 691
EciI GGCGGA 1 cut(s) 984
Eco105I TACGTA 1 cut(s) 736
Eco130I CCWWGG 4 cut(s) 57, 85, 386, 424
Eco147I AGGCCT 1 cut(s) 784
EcoRII CCWGG 1 cut(s) 919
EcoT14I CCWWGG 4 cut(s) 57, 85, 386, 424
ErhI CCWWGG 4 cut(s) 57, 85, 386, 424
FaeI CATG 6 cut(s) 61, 428, 531, 553, 625, 688
FaqI GGGAC 1 cut(s) 638
FatI CATG 6 cut(s) 57, 424, 527, 549, 621, 684
Fnu4HI GCNGC 2 cut(s) 313, 579
FokI GGATG 3 cut(s) 169, 614, 647
Fsp4HI GCNGC 2 cut(s) 313, 579
FspBI CTAG 1 cut(s) 506
GluI GCNGC 2 cut(s) 313, 579
HaeIII GGCC 5 cut(s) 35, 84, 689, 784, 919
HapII CCGG 1 cut(s) 186
HgaI GACGC 1 cut(s) 623
Hin1II CATG 6 cut(s) 61, 428, 531, 553, 625, 688
HincII GTYRAC 1 cut(s) 613
HindII GTYRAC 1 cut(s) 613
HinfI GANTC 3 cut(s) 514, 588, 641
HpaII CCGG 1 cut(s) 186
HphI GGTGA 4 cut(s) 165, 413, 650, 996
Hpy166II GTNNAC 2 cut(s) 613, 811
Hpy188I TCNGA 6 cut(s) 253, 264, 460, 832, 883, 954
Hpy188III TCNNGA 3 cut(s) 186, 518, 1041
Hpy8I GTNNAC 2 cut(s) 613, 811
HpyAV CCTTC 3 cut(s) 504, 686, 887
HpyCH4III ACNGT 3 cut(s) 122, 177, 748
HpyCH4IV ACGT 1 cut(s) 735
HpyCH4V TGCA 5 cut(s) 336, 482, 578, 1014, 1023
HpyF10VI GCNNNNNNNGC 3 cut(s) 114, 218, 1020
HpyF3I CTNAG 2 cut(s) 261, 850
HpySE526I ACGT 1 cut(s) 735
Hsp92II CATG 6 cut(s) 61, 428, 531, 553, 625, 688
Kpn2I TCCGGA 1 cut(s) 185
Kzo9I GATC 3 cut(s) 382, 681, 883
LmnI GCTCC 2 cut(s) 428, 791
Lsp1109I GCAGC 1 cut(s) 590
LweI GCATC 2 cut(s) 191, 945
MaeI CTAG 1 cut(s) 506
MaeII ACGT 1 cut(s) 735
MaeIII GTNAC 4 cut(s) 18, 171, 328, 742
MalI GATC 3 cut(s) 384, 683, 885
MboI GATC 3 cut(s) 382, 681, 883
MboII GAAGA 3 cut(s) 289, 708, 809
MhlI GDGCHC 1 cut(s) 51
MluCI AATT 3 cut(s) 167, 573, 860
MlyI GAGTC 3 cut(s) 508, 597, 650
MmeI TCCRAC 2 cut(s) 897, 925
MroI TCCGGA 1 cut(s) 185
MseI TTAA 1 cut(s) 939
MslI CAYNNNNRTG 1 cut(s) 253
MspI CCGG 1 cut(s) 186
MspR9I CCNGG 1 cut(s) 921
Mva1269I GAATGC 2 cut(s) 223, 260
MvaI CCWGG 1 cut(s) 921
MvnI CGCG 1 cut(s) 519
MwoI GCNNNNNNNGC 3 cut(s) 114, 218, 1020
NcoI CCATGG 2 cut(s) 57, 424
NdeII GATC 3 cut(s) 382, 681, 883
NlaIII CATG 6 cut(s) 61, 428, 531, 553, 625, 688
NlaIV GGNNCC 2 cut(s) 430, 1028
NmuCI GTSAC 3 cut(s) 18, 171, 328
NruI TCGCGA 1 cut(s) 519
PceI AGGCCT 1 cut(s) 784
PctI GAATGC 2 cut(s) 223, 260
PkrI GCNGC 2 cut(s) 314, 580
PleI GAGTC 3 cut(s) 508, 596, 649
PpsI GAGTC 3 cut(s) 508, 596, 649
Ppu21I YACGTR 1 cut(s) 736
PshAI GACNNNNGTC 1 cut(s) 239
Psp6I CCWGG 1 cut(s) 919
PspGI CCWGG 1 cut(s) 919
PspN4I GGNNCC 2 cut(s) 430, 1028
PspPI GGNCC 2 cut(s) 34, 82
PsrI GAACNNNNNNTAC 2 cut(s) 272, 304
RruI TCGCGA 1 cut(s) 519
RsaI GTAC 1 cut(s) 983
RsaNI GTAC 1 cut(s) 982
RseI CAYNNNNRTG 1 cut(s) 253
SaqAI TTAA 1 cut(s) 939
SatI GCNGC 2 cut(s) 313, 579
Sau3AI GATC 3 cut(s) 382, 681, 883
Sau96I GGNCC 2 cut(s) 34, 82
SchI GAGTC 3 cut(s) 508, 597, 650
ScrFI CCNGG 1 cut(s) 921
SduI GDGCHC 1 cut(s) 51
SfaNI GCATC 2 cut(s) 191, 945
SmiMI CAYNNNNRTG 1 cut(s) 253
SnaBI TACGTA 1 cut(s) 736
Sse9I AATT 3 cut(s) 167, 573, 860
SseBI AGGCCT 1 cut(s) 784
SsiI CCGC 2 cut(s) 312, 969
SspMI CTAG 1 cut(s) 506
StuI AGGCCT 1 cut(s) 784
StyD4I CCNGG 1 cut(s) 919
StyI CCWWGG 4 cut(s) 57, 85, 386, 424
TaaI ACNGT 3 cut(s) 122, 177, 748
TaiI ACGT 1 cut(s) 738
TaqI TCGA 2 cut(s) 499, 555
TasI AATT 3 cut(s) 167, 573, 860
TauI GCSGC 1 cut(s) 315
Tru1I TTAA 1 cut(s) 939
Tru9I TTAA 1 cut(s) 939
TscAI CASTG 2 cut(s) 655, 664
TseFI GTSAC 3 cut(s) 18, 171, 328
TseI GCWGC 1 cut(s) 578
Tsp45I GTSAC 3 cut(s) 18, 171, 328
TspDTI ATGAA 3 cut(s) 180, 292, 478
TspRI CASTG 2 cut(s) 655, 664
XcmI CCANNNNNNNNNTGG 1 cut(s) 1037
XspI CTAG 1 cut(s) 506
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.