Rw5G036640

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0002778
Physical Location & Seq
Forward (+)
64287887 .. 64289425
1539 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G036640.1

Sequence Viewer

Length: 1251 bp
ATGGCTAAACTGAGAGTGTCTTTTGTGTTGGTGGCTGTCGCTGTGGTGCTTATTGCCATGGAAGCCAGCTCTGTTCTGGGCCAAGGCAGTGGAAACGGAAACGGGAATGGGAATGGCAACACTGGCAGTGGCAATGGAAATGGGAACGGTAATGGCAACACTGGCAGTGGCAACGGGAATGGGAACGGGAATGGCAACACTGGCAGTGGCAACGGCAACGGAAATGGGAACGGCAACGGCAACGGAAATGGTAATGGCAATGGTAACGGTAATGGCAATGGCAACGGGAATGGTAACGGCGATGAAATTAGTGACAGCACGAACTACGACGTATTGCCACCTCTAGCGACGGGACAGGAGCAATGCATGTGCAAAGCGCAGGGAGCCTGTTTCTACAAGACGCTTGTTTGTCCACCAGAATGCCCCGAGAGAAAGCCCAAAAACAACAAGAAAAAAAAGGGTTGCTTCGTTAACTGCGGAAGCAAGTGTGAAGTCACTTGCAAAATTAGAAGAGGCAACTGTGATGGTTATGGATCTATCTGCTACGACCCTCGATTTATCGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGTCAAGGGAGGAAACTTTGCCATTGTCTCGGATGAAAAACTCCACATCAACGCACATTTCATTGGGACTCGACCAGAAGGAAGGACTCGTGACTTCACATGGATTCAAGCAATCTCAATCATGTTCGACAGTCACACCCTTGTTATTGGAGCAAAGAGGGTTTCCAAGTGGAATGACAAAGTTGATGCTCTCATGGTGAAGTGGGATAGTGAGTCAGTTGACATCCCTGAATATGGAGGGGCCGAATGGAGGACTAATGGTGAGGACAGAGAGGTAATCATCGAAAGAACCGATGATGCGAACTATGCAAGAGTTACGGTCTCTGATTTGGTCGACATAACCATTAGGGTTAGGCCTATTGGAGAAAAGGAAGACAGGGTTCATCATTACCATATACCAGTTGATGATACTTTTGCTCACTTGGAGACACAGTTCACATTTTCGAAATTATCTGATCTGGTGGAAGGAGTTCTAGGGAAGACCTATAGGCCAGGTTATGTTAGTCGAGTCAAGAGAGGAGTTCCAATGCCATTGATGGGTGGAGAGGATAAGTACAAAACTCCATCACTCTTTTCACCTATCTGCAAGGTTTGTAGGTTTCAAACTACTGCTCGTCAATCTGGTGGGCTTGCAATTACAACCGGAGTGGCTGCTTAA
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

416

Amino Acids

44.25

Weight (kDa)

8.16

Isoelectric Point (pI)

13.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 342 - 398 8e-28 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)
AccI GTMKAC 1 cut(s) 927
AciI CCGC 1 cut(s) 477
AclWI GGATC 1 cut(s) 541
AfaI GTAC 1 cut(s) 1148
AfiI CCNNNNNNNGG 3 cut(s) 827, 843, 1130
AgsI TTSAA 2 cut(s) 701, 1196
AjnI CCWGG 1 cut(s) 1084
AloI GAACNNNNNNTCC 2 cut(s) 1010, 1042
AluBI AGCT 1 cut(s) 69
AluI AGCT 1 cut(s) 69
Alw26I GTCTC 3 cut(s) 625, 919, 1013
AlwI GGATC 1 cut(s) 541
Ama87I CYCGRG 1 cut(s) 425
AoxI GGCC 4 cut(s) 79, 834, 947, 1082
ApeKI GCWGC 1 cut(s) 1244
Asp700I GAANNNNTTC 1 cut(s) 1062
AspLEI GCGC 1 cut(s) 379
AspS9I GGNCC 2 cut(s) 79, 834
AsuHPI GGTGA 4 cut(s) 578, 802, 866, 1161
AsuII TTCGAA 1 cut(s) 1037
AvaI CYCGRG 1 cut(s) 425
BauI CACGAG 1 cut(s) 681
BbsI GAAGAC 2 cut(s) 972, 1079
BbvI GCAGC 1 cut(s) 1231
BccI CCATC 4 cut(s) 518, 563, 1123, 1165
BceAI ACGGC 4 cut(s) 229, 247, 253, 313
BciT130I CCWGG 1 cut(s) 1086
BcoDI GTCTC 3 cut(s) 625, 919, 1013
BfaI CTAG 2 cut(s) 344, 1067
BfmI CTRYAG 1 cut(s) 1078
BisI GCNGC 1 cut(s) 1245
BlsI GCNGC 1 cut(s) 1246
Bme1390I CCNGG 1 cut(s) 1086
BmeT110I CYCGRG 1 cut(s) 425
BmgT120I GGNCC 2 cut(s) 79, 834
BmiI GGNNCC 2 cut(s) 385, 835
BmrFI CCNGG 1 cut(s) 1086
BmsI GCATC 2 cut(s) 769, 880
BpiI GAAGAC 2 cut(s) 972, 1079
Bpu14I TTCGAA 1 cut(s) 1037
BsaI GGTCTC 1 cut(s) 919
BsaJI CCNNGG 3 cut(s) 57, 82, 589
BsaWI WCCGGW 1 cut(s) 1235
BsaXI ACNNNNNCTCC 2 cut(s) 1010, 1040
Bsc4I CCNNNNNNNGG 3 cut(s) 827, 843, 1130
Bse1I ACTGG 4 cut(s) 127, 166, 205, 992
Bse3DI GCAATG 4 cut(s) 139, 265, 283, 368
BseBI CCWGG 1 cut(s) 1086
BseDI CCNNGG 3 cut(s) 57, 82, 589
BseGI GGATG 2 cut(s) 631, 816
BseLI CCNNNNNNNGG 3 cut(s) 827, 843, 1130
BseMI GCAATG 4 cut(s) 139, 265, 283, 368
BseNI ACTGG 4 cut(s) 127, 166, 205, 992
BseRI GAGGAG 1 cut(s) 1125
BseXI GCAGC 1 cut(s) 1231
BshFI GGCC 4 cut(s) 81, 836, 949, 1084
BsiHKCI CYCGRG 1 cut(s) 425
BsiSI CCGG 1 cut(s) 1236
BslFI GGGAC 2 cut(s) 366, 673
BslI CCNNNNNNNGG 3 cut(s) 827, 843, 1130
BsmAI GTCTC 3 cut(s) 625, 919, 1013
BsmFI GGGAC 2 cut(s) 366, 673
BsmI GAATGC 1 cut(s) 425
BsnI GGCC 4 cut(s) 81, 836, 949, 1084
Bso31I GGTCTC 1 cut(s) 919
BsoBI CYCGRG 1 cut(s) 425
Bsp119I TTCGAA 1 cut(s) 1037
Bsp143I GATC 2 cut(s) 533, 1048
Bsp19I CCATGG 2 cut(s) 57, 589
BspACI CCGC 1 cut(s) 477
BspANI GGCC 4 cut(s) 81, 836, 949, 1084
BspLI GGNNCC 2 cut(s) 385, 835
BspPI GGATC 1 cut(s) 541
BspT104I TTCGAA 1 cut(s) 1037
BspTNI GGTCTC 1 cut(s) 919
BsrDI GCAATG 4 cut(s) 139, 265, 283, 368
BsrI ACTGG 4 cut(s) 127, 166, 205, 992
BssECI CCNNGG 3 cut(s) 57, 82, 589
BssMI GATC 2 cut(s) 533, 1048
BssSI CACGAG 1 cut(s) 681
BssT1I CCWWGG 3 cut(s) 57, 82, 589
Bst2BI CACGAG 1 cut(s) 681
Bst2UI CCWGG 1 cut(s) 1086
Bst4CI ACNGT 6 cut(s) 149, 269, 521, 725, 913, 1026
Bst6I CTCTTC 1 cut(s) 505
BstBI TTCGAA 1 cut(s) 1037
BstC8I GCNNGC 2 cut(s) 67, 1224
BstDEI CTNAG 1 cut(s) 11
BstDSI CCRYGG 2 cut(s) 57, 589
BstF5I GGATG 2 cut(s) 631, 816
BstHHI GCGC 1 cut(s) 379
BstKTI GATC 2 cut(s) 536, 1051
BstMAI GTCTC 3 cut(s) 625, 919, 1013
BstMBI GATC 2 cut(s) 533, 1048
BstMWI GCNNNNNNNGC 6 cut(s) 62, 123, 162, 201, 383, 899
BstNI CCWGG 1 cut(s) 1086
BstNSI RCATGY 1 cut(s) 370
BstSCI CCNGG 1 cut(s) 1084
BstSFI CTRYAG 1 cut(s) 1078
BstV1I GCAGC 1 cut(s) 1231
BstV2I GAAGAC 2 cut(s) 972, 1079
BstX2I RGATCY 1 cut(s) 533
BstXI CCANNNNNNTGG 1 cut(s) 89
BstYI RGATCY 1 cut(s) 533
BsuRI GGCC 4 cut(s) 81, 836, 949, 1084
BtgI CCRYGG 2 cut(s) 57, 589
BtgZI GCGATG 1 cut(s) 315
BtsCI GGATG 2 cut(s) 631, 816
BtsI GCAGTG 4 cut(s) 94, 133, 172, 211
BtsIMutI CAGTG 7 cut(s) 94, 120, 133, 159, 172, 198, 211
Cac8I GCNNGC 2 cut(s) 67, 1224
CfoI GCGC 1 cut(s) 379
Cfr13I GGNCC 2 cut(s) 79, 834
CseI GACGC 1 cut(s) 409
Csp6I GTAC 1 cut(s) 1147
CspCI CAANNNNNGTGG 1 cut(s) 1221
CviAII CATG 6 cut(s) 58, 367, 590, 693, 715, 787
CviQI GTAC 1 cut(s) 1147
DdeI CTNAG 1 cut(s) 11
DpnI GATC 2 cut(s) 535, 1050
DpnII GATC 2 cut(s) 533, 1048
Eam1104I CTCTTC 1 cut(s) 505
EarI CTCTTC 1 cut(s) 505
Eco130I CCWWGG 3 cut(s) 57, 82, 589
Eco147I AGGCCT 1 cut(s) 949
Eco31I GGTCTC 1 cut(s) 919
Eco88I CYCGRG 1 cut(s) 425
EcoRII CCWGG 1 cut(s) 1084
EcoT14I CCWWGG 3 cut(s) 57, 82, 589
EcoT22I ATGCAT 1 cut(s) 368
ErhI CCWWGG 3 cut(s) 57, 82, 589
FaeI CATG 6 cut(s) 61, 370, 593, 696, 718, 790
FalI AAGNNNNNCTT 2 cut(s) 449, 481
FaqI GGGAC 2 cut(s) 366, 673
FatI CATG 6 cut(s) 57, 366, 589, 692, 714, 786
FblI GTMKAC 1 cut(s) 927
Fnu4HI GCNGC 1 cut(s) 1245
FokI GGATG 2 cut(s) 638, 803
Fsp4HI GCNGC 1 cut(s) 1245
FspBI CTAG 2 cut(s) 344, 1067
GlaI GCGC 1 cut(s) 378
GluI GCNGC 1 cut(s) 1245
HaeIII GGCC 4 cut(s) 81, 836, 949, 1084
HapII CCGG 1 cut(s) 1236
HgaI GACGC 1 cut(s) 409
HhaI GCGC 1 cut(s) 379
Hin1II CATG 6 cut(s) 61, 370, 593, 696, 718, 790
Hin6I GCGC 1 cut(s) 377
HinP1I GCGC 1 cut(s) 377
HincII GTYRAC 3 cut(s) 472, 814, 928
HindII GTYRAC 3 cut(s) 472, 814, 928
HinfI GANTC 6 cut(s) 594, 661, 679, 697, 806, 1101
HpaI GTTAAC 1 cut(s) 472
HpaII CCGG 1 cut(s) 1236
HphI GGTGA 4 cut(s) 578, 802, 866, 1161
Hpy166II GTNNAC 5 cut(s) 413, 472, 814, 928, 1029
Hpy188I TCNGA 3 cut(s) 625, 919, 1048
Hpy188III TCNNGA 2 cut(s) 683, 1105
Hpy8I GTNNAC 5 cut(s) 413, 472, 814, 928, 1029
Hpy99I CGWCG 2 cut(s) 332, 352
HpyAV CCTTC 3 cut(s) 665, 669, 1052
HpyCH4III ACNGT 6 cut(s) 149, 269, 521, 725, 913, 1026
HpyCH4IV ACGT 1 cut(s) 330
HpyCH4V TGCA 6 cut(s) 366, 372, 501, 902, 1179, 1226
HpyF10VI GCNNNNNNNGC 6 cut(s) 62, 123, 162, 201, 383, 899
HpyF3I CTNAG 1 cut(s) 11
HpySE526I ACGT 1 cut(s) 330
Hsp92II CATG 6 cut(s) 61, 370, 593, 696, 718, 790
HspAI GCGC 1 cut(s) 377
KspAI GTTAAC 1 cut(s) 472
Kzo9I GATC 2 cut(s) 533, 1048
LmnI GCTCC 3 cut(s) 358, 383, 743
Lsp1109I GCAGC 1 cut(s) 1231
LweI GCATC 2 cut(s) 769, 880
MaeI CTAG 2 cut(s) 344, 1067
MaeII ACGT 1 cut(s) 330
MaeIII GTNAC 7 cut(s) 263, 293, 311, 493, 683, 725, 907
MalI GATC 2 cut(s) 535, 1050
MboI GATC 2 cut(s) 533, 1048
MboII GAAGA 3 cut(s) 522, 977, 1084
MflI RGATCY 1 cut(s) 533
MluCI AATT 4 cut(s) 306, 504, 1040, 1227
MlyI GAGTC 5 cut(s) 603, 655, 673, 815, 1110
Mph1103I ATGCAT 1 cut(s) 368
MroXI GAANNNNTTC 1 cut(s) 1062
MseI TTAA 2 cut(s) 471, 1249
MslI CAYNNNNRTG 1 cut(s) 418
MspI CCGG 1 cut(s) 1236
MspR9I CCNGG 1 cut(s) 1086
Mva1269I GAATGC 1 cut(s) 425
MvaI CCWGG 1 cut(s) 1086
MwoI GCNNNNNNNGC 6 cut(s) 62, 123, 162, 201, 383, 899
NcoI CCATGG 2 cut(s) 57, 589
NdeII GATC 2 cut(s) 533, 1048
NlaIII CATG 6 cut(s) 61, 370, 593, 696, 718, 790
NlaIV GGNNCC 2 cut(s) 385, 835
NmuCI GTSAC 4 cut(s) 311, 493, 683, 725
NsiI ATGCAT 1 cut(s) 368
NspI RCATGY 1 cut(s) 370
NspV TTCGAA 1 cut(s) 1037
PceI AGGCCT 1 cut(s) 949
PcsI WCGNNNNNNNCGW 1 cut(s) 882
PctI GAATGC 1 cut(s) 425
PdmI GAANNNNTTC 1 cut(s) 1062
PfeI GAWTC 1 cut(s) 697
PkrI GCNGC 1 cut(s) 1246
PleI GAGTC 5 cut(s) 602, 655, 673, 814, 1109
PpsI GAGTC 5 cut(s) 602, 655, 673, 814, 1109
Psp6I CCWGG 1 cut(s) 1084
PspGI CCWGG 1 cut(s) 1084
PspN4I GGNNCC 2 cut(s) 385, 835
PspPI GGNCC 2 cut(s) 79, 834
PsuI RGATCY 1 cut(s) 533
RsaI GTAC 1 cut(s) 1148
RsaNI GTAC 1 cut(s) 1147
RseI CAYNNNNRTG 1 cut(s) 418
SalI GTCGAC 1 cut(s) 926
SaqAI TTAA 2 cut(s) 471, 1249
SatI GCNGC 1 cut(s) 1245
Sau3AI GATC 2 cut(s) 533, 1048
Sau96I GGNCC 2 cut(s) 79, 834
SchI GAGTC 5 cut(s) 603, 655, 673, 815, 1110
ScrFI CCNGG 1 cut(s) 1086
SetI ASST 9 cut(s) 71, 333, 343, 870, 1079, 1090, 1174, 1185, 1193
SfaNI GCATC 2 cut(s) 769, 880
SfcI CTRYAG 1 cut(s) 1078
SfuI TTCGAA 1 cut(s) 1037
SmiMI CAYNNNNRTG 1 cut(s) 418
Sse9I AATT 4 cut(s) 306, 504, 1040, 1227
SseBI AGGCCT 1 cut(s) 949
SsiI CCGC 1 cut(s) 477
SspMI CTAG 2 cut(s) 344, 1067
StuI AGGCCT 1 cut(s) 949
StyD4I CCNGG 1 cut(s) 1084
StyI CCWWGG 3 cut(s) 57, 82, 589
TaaI ACNGT 6 cut(s) 149, 269, 521, 725, 913, 1026
TaiI ACGT 1 cut(s) 333
TaqI TCGA 7 cut(s) 553, 664, 720, 876, 927, 1037, 1099
TasI AATT 4 cut(s) 306, 504, 1040, 1227
TatI WGTACW 1 cut(s) 1146
TfiI GAWTC 1 cut(s) 697
Tru1I TTAA 2 cut(s) 471, 1249
Tru9I TTAA 2 cut(s) 471, 1249
TscAI CASTG 7 cut(s) 94, 127, 133, 166, 172, 205, 211
TseFI GTSAC 4 cut(s) 311, 493, 683, 725
TseI GCWGC 1 cut(s) 1244
Tsp45I GTSAC 4 cut(s) 311, 493, 683, 725
TspDTI ATGAA 4 cut(s) 318, 642, 643, 965
TspGWI ACGGA 3 cut(s) 111, 234, 258
TspRI CASTG 7 cut(s) 94, 127, 133, 166, 172, 205, 211
XceI RCATGY 1 cut(s) 370
XcmI CCANNNNNNNNNTGG 1 cut(s) 73
XmiI GTMKAC 1 cut(s) 927
XmnI GAANNNNTTC 1 cut(s) 1062
XspI CTAG 2 cut(s) 344, 1067
Zsp2I ATGCAT 1 cut(s) 368
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.