Rh5AG389600

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0002778
Physical Location & Seq
Forward (+)
67412335 .. 67413743
1409 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG389600.1

Sequence Viewer

Length: 1053 bp
ATGGCTACAATAAGAATGTCACATACATTGGTGGCCCTCCTTGTTGTGCTCGTTTCCATGGAAGCAATGTCCTTTGTTCTGGGCCAAGGCAATGGAAATGGTAATAGTGGCAACGGTAACGGCAATGGAAACGGGAATGGGAATGGCAATGACTACGATGAATTGTCACCGTTAGCATCCGGACAGGAGAGAGGCTTCTGTAAAGCAAAGAATGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAATACAAGGGTTGTTTCATCAACTGCGGCAACAAATGTGAAGTCACTTGCAAGTGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAGTCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAAAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCAGTCAGCATCCCCACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATAGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTATGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTTCGAAGGCAATCTGGACTTGCTCAATACTGA
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

350

Amino Acids

38.81

Weight (kDa)

8.73

Isoelectric Point (pI)

22.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 285 - 341 1.8e-29 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)
AasI GACNNNNNNGTC 1 cut(s) 770
Acc36I ACCTGC 1 cut(s) 1008
AccII CGCG 1 cut(s) 513
AccIII TCCGGA 1 cut(s) 179
AciI CCGC 2 cut(s) 306, 963
AclWI GGATC 2 cut(s) 371, 683
AcoI YGGCCR 1 cut(s) 681
AfiI CCNNNNNNNGG 3 cut(s) 656, 672, 959
AgsI TTSAA 2 cut(s) 530, 707
AjnI CCWGG 1 cut(s) 913
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 2 cut(s) 589, 842
AlwI GGATC 2 cut(s) 371, 683
Aor13HI TCCGGA 1 cut(s) 179
AoxI GGCC 5 cut(s) 33, 82, 681, 776, 911
ApeKI GCWGC 1 cut(s) 572
ArsI GACNNNNNNTTYG 2 cut(s) 306, 338
AspS9I GGNCC 2 cut(s) 34, 82
AsuHPI GGTGA 4 cut(s) 159, 407, 644, 990
AsuII TTCGAA 1 cut(s) 1024
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 1 cut(s) 584
BccI CCATC 8 cut(s) 250, 392, 623, 650, 754, 829, 952, 994
BceAI ACGGC 1 cut(s) 136
BciT130I CCWGG 1 cut(s) 915
BcoDI GTCTC 2 cut(s) 589, 842
BfaI CTAG 1 cut(s) 500
BfuAI ACCTGC 1 cut(s) 1008
BisI GCNGC 2 cut(s) 307, 573
BlsI GCNGC 2 cut(s) 308, 574
Bme1390I CCNGG 1 cut(s) 915
BmgT120I GGNCC 2 cut(s) 34, 82
BmiI GGNNCC 1 cut(s) 424
BmrFI CCNGG 1 cut(s) 915
BmsI GCATC 3 cut(s) 185, 654, 939
BoxI GACNNNNGTC 1 cut(s) 233
Bpu14I TTCGAA 1 cut(s) 1024
BsaAI YACGTR 1 cut(s) 730
BsaJI CCNNGG 4 cut(s) 57, 85, 380, 418
BsaWI WCCGGW 1 cut(s) 179
Bsc4I CCNNNNNNNGG 3 cut(s) 656, 672, 959
Bse1I ACTGG 1 cut(s) 929
Bse3DI GCAATG 4 cut(s) 72, 97, 130, 154
BseAI TCCGGA 1 cut(s) 179
BseBI CCWGG 1 cut(s) 915
BseDI CCNNGG 4 cut(s) 57, 85, 380, 418
BseGI GGATG 4 cut(s) 176, 601, 634, 645
BseLI CCNNNNNNNGG 3 cut(s) 656, 672, 959
BseMI GCAATG 4 cut(s) 72, 97, 130, 154
BseMII CTCAG 2 cut(s) 269, 552
BseNI ACTGG 1 cut(s) 929
BseXI GCAGC 1 cut(s) 584
Bsh1236I CGCG 1 cut(s) 513
BshFI GGCC 5 cut(s) 35, 84, 683, 778, 913
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 1 cut(s) 180
BslI CCNNNNNNNGG 3 cut(s) 656, 672, 959
BsmAI GTCTC 2 cut(s) 589, 842
BsmI GAATGC 2 cut(s) 217, 254
BsnI GGCC 5 cut(s) 35, 84, 683, 778, 913
Bsp119I TTCGAA 1 cut(s) 1024
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 179
Bsp143I GATC 3 cut(s) 376, 675, 877
Bsp19I CCATGG 2 cut(s) 57, 418
Bsp68I TCGCGA 1 cut(s) 513
BspACI CCGC 2 cut(s) 306, 963
BspANI GGCC 5 cut(s) 35, 84, 683, 778, 913
BspCNI CTCAG 2 cut(s) 268, 551
BspEI TCCGGA 1 cut(s) 179
BspFNI CGCG 1 cut(s) 513
BspLI GGNNCC 1 cut(s) 424
BspMI ACCTGC 1 cut(s) 1008
BspPI GGATC 2 cut(s) 371, 683
BspT104I TTCGAA 1 cut(s) 1024
BsrDI GCAATG 4 cut(s) 72, 97, 130, 154
BsrI ACTGG 1 cut(s) 929
BssECI CCNNGG 4 cut(s) 57, 85, 380, 418
BssMI GATC 3 cut(s) 376, 675, 877
BssT1I CCWWGG 4 cut(s) 57, 85, 380, 418
Bst2UI CCWGG 1 cut(s) 915
Bst4CI ACNGT 3 cut(s) 116, 171, 742
Bst6I CTCTTC 1 cut(s) 685
BstAPI GCANNNNNTGC 2 cut(s) 212, 1014
BstBAI YACGTR 1 cut(s) 730
BstBI TTCGAA 1 cut(s) 1024
BstC8I GCNNGC 1 cut(s) 217
BstDEI CTNAG 3 cut(s) 255, 538, 844
BstDSI CCRYGG 2 cut(s) 57, 418
BstF5I GGATG 4 cut(s) 176, 601, 634, 645
BstFNI CGCG 1 cut(s) 513
BstKTI GATC 3 cut(s) 379, 678, 880
BstMAI GTCTC 2 cut(s) 589, 842
BstMBI GATC 3 cut(s) 376, 675, 877
BstMWI GCNNNNNNNGC 2 cut(s) 212, 1014
BstNI CCWGG 1 cut(s) 915
BstPAI GACNNNNGTC 1 cut(s) 233
BstSCI CCNGG 1 cut(s) 913
BstSNI TACGTA 1 cut(s) 730
BstUI CGCG 1 cut(s) 513
BstV1I GCAGC 1 cut(s) 584
BstXI CCANNNNNNTGG 1 cut(s) 92
BsuRI GGCC 5 cut(s) 35, 84, 683, 778, 913
BtgI CCRYGG 2 cut(s) 57, 418
BtsCI GGATG 4 cut(s) 176, 601, 634, 645
BtsIMutI CAGTG 1 cut(s) 651
BtuMI TCGCGA 1 cut(s) 513
BveI ACCTGC 1 cut(s) 1008
Cac8I GCNNGC 1 cut(s) 217
Cfr13I GGNCC 2 cut(s) 34, 82
CseI GACGC 1 cut(s) 617
CviAII CATG 6 cut(s) 58, 419, 522, 544, 616, 679
DdeI CTNAG 3 cut(s) 255, 538, 844
DpnI GATC 3 cut(s) 378, 677, 879
DpnII GATC 3 cut(s) 376, 675, 877
DrdI GACNNNNNNGTC 1 cut(s) 770
DseDI GACNNNNNNGTC 1 cut(s) 770
EaeI YGGCCR 1 cut(s) 681
Eam1104I CTCTTC 1 cut(s) 685
EarI CTCTTC 1 cut(s) 685
EciI GGCGGA 1 cut(s) 978
Eco105I TACGTA 1 cut(s) 730
Eco130I CCWWGG 4 cut(s) 57, 85, 380, 418
Eco147I AGGCCT 1 cut(s) 778
EcoRII CCWGG 1 cut(s) 913
EcoT14I CCWWGG 4 cut(s) 57, 85, 380, 418
ErhI CCWWGG 4 cut(s) 57, 85, 380, 418
FaeI CATG 6 cut(s) 61, 422, 525, 547, 619, 682
FatI CATG 6 cut(s) 57, 418, 521, 543, 615, 678
Fnu4HI GCNGC 2 cut(s) 307, 573
FokI GGATG 4 cut(s) 163, 608, 632, 641
Fsp4HI GCNGC 2 cut(s) 307, 573
FspBI CTAG 1 cut(s) 500
GluI GCNGC 2 cut(s) 307, 573
HaeIII GGCC 5 cut(s) 35, 84, 683, 778, 913
HapII CCGG 1 cut(s) 180
HgaI GACGC 1 cut(s) 617
Hin1II CATG 6 cut(s) 61, 422, 525, 547, 619, 682
HincII GTYRAC 1 cut(s) 607
HindII GTYRAC 1 cut(s) 607
HinfI GANTC 3 cut(s) 508, 582, 635
HpaII CCGG 1 cut(s) 180
HphI GGTGA 4 cut(s) 159, 407, 644, 990
Hpy166II GTNNAC 2 cut(s) 607, 805
Hpy188I TCNGA 6 cut(s) 247, 258, 454, 826, 877, 948
Hpy188III TCNNGA 3 cut(s) 180, 512, 1035
Hpy8I GTNNAC 2 cut(s) 607, 805
HpyAV CCTTC 4 cut(s) 498, 680, 881, 1020
HpyCH4III ACNGT 3 cut(s) 116, 171, 742
HpyCH4IV ACGT 1 cut(s) 729
HpyCH4V TGCA 5 cut(s) 330, 476, 572, 1008, 1017
HpyF10VI GCNNNNNNNGC 2 cut(s) 212, 1014
HpyF3I CTNAG 3 cut(s) 255, 538, 844
HpySE526I ACGT 1 cut(s) 729
Hsp92II CATG 6 cut(s) 61, 422, 525, 547, 619, 682
Kpn2I TCCGGA 1 cut(s) 179
Kzo9I GATC 3 cut(s) 376, 675, 877
LmnI GCTCC 2 cut(s) 422, 785
Lsp1109I GCAGC 1 cut(s) 584
LweI GCATC 3 cut(s) 185, 654, 939
MaeI CTAG 1 cut(s) 500
MaeII ACGT 1 cut(s) 729
MaeIII GTNAC 5 cut(s) 18, 116, 165, 322, 736
MalI GATC 3 cut(s) 378, 677, 879
MboI GATC 3 cut(s) 376, 675, 877
MboII GAAGA 3 cut(s) 283, 702, 803
MhlI GDGCHC 1 cut(s) 51
MluCI AATT 3 cut(s) 161, 567, 854
MlyI GAGTC 3 cut(s) 502, 591, 644
MmeI TCCRAC 2 cut(s) 891, 919
MroI TCCGGA 1 cut(s) 179
MseI TTAA 1 cut(s) 933
MslI CAYNNNNRTG 1 cut(s) 247
MspI CCGG 1 cut(s) 180
MspR9I CCNGG 1 cut(s) 915
Mva1269I GAATGC 2 cut(s) 217, 254
MvaI CCWGG 1 cut(s) 915
MvnI CGCG 1 cut(s) 513
MwoI GCNNNNNNNGC 2 cut(s) 212, 1014
NcoI CCATGG 2 cut(s) 57, 418
NdeII GATC 3 cut(s) 376, 675, 877
NlaIII CATG 6 cut(s) 61, 422, 525, 547, 619, 682
NlaIV GGNNCC 1 cut(s) 424
NmuCI GTSAC 3 cut(s) 18, 165, 322
NruI TCGCGA 1 cut(s) 513
NspV TTCGAA 1 cut(s) 1024
PceI AGGCCT 1 cut(s) 778
PctI GAATGC 2 cut(s) 217, 254
PkrI GCNGC 2 cut(s) 308, 574
PleI GAGTC 3 cut(s) 502, 590, 643
PpsI GAGTC 3 cut(s) 502, 590, 643
Ppu21I YACGTR 1 cut(s) 730
PshAI GACNNNNGTC 1 cut(s) 233
Psp6I CCWGG 1 cut(s) 913
PspGI CCWGG 1 cut(s) 913
PspN4I GGNNCC 1 cut(s) 424
PspPI GGNCC 2 cut(s) 34, 82
PsrI GAACNNNNNNTAC 2 cut(s) 266, 298
RruI TCGCGA 1 cut(s) 513
RseI CAYNNNNRTG 1 cut(s) 247
SaqAI TTAA 1 cut(s) 933
SatI GCNGC 2 cut(s) 307, 573
Sau3AI GATC 3 cut(s) 376, 675, 877
Sau96I GGNCC 2 cut(s) 34, 82
SchI GAGTC 3 cut(s) 502, 591, 644
ScrFI CCNGG 1 cut(s) 915
SduI GDGCHC 1 cut(s) 51
SfaNI GCATC 3 cut(s) 185, 654, 939
SfuI TTCGAA 1 cut(s) 1024
SmiMI CAYNNNNRTG 1 cut(s) 247
SnaBI TACGTA 1 cut(s) 730
Sse9I AATT 3 cut(s) 161, 567, 854
SseBI AGGCCT 1 cut(s) 778
SsiI CCGC 2 cut(s) 306, 963
SspMI CTAG 1 cut(s) 500
StuI AGGCCT 1 cut(s) 778
StyD4I CCNGG 1 cut(s) 913
StyI CCWWGG 4 cut(s) 57, 85, 380, 418
TaaI ACNGT 3 cut(s) 116, 171, 742
TaiI ACGT 1 cut(s) 732
TaqI TCGA 3 cut(s) 493, 549, 1024
TasI AATT 3 cut(s) 161, 567, 854
TauI GCSGC 1 cut(s) 309
Tru1I TTAA 1 cut(s) 933
Tru9I TTAA 1 cut(s) 933
TscAI CASTG 1 cut(s) 658
TseFI GTSAC 3 cut(s) 18, 165, 322
TseI GCWGC 1 cut(s) 572
Tsp45I GTSAC 3 cut(s) 18, 165, 322
TspDTI ATGAA 4 cut(s) 174, 286, 472, 993
TspRI CASTG 1 cut(s) 658
XspI CTAG 1 cut(s) 500
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.