Rh5DG417600

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0002778
Physical Location & Seq
Forward (+)
66341859 .. 66343109
1251 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG417600.1

Sequence Viewer

Length: 1071 bp
ATGGCTACACTAAGAATGTCACATACATTGGTGGCCCTCCTTGTTGTGCTCGTTTCCATGGAAGCAATGTCCTTTGTTCTGGGCCAAGGCAATGGAAATGGAAACGGCAATGGCAATGGCAATAGTGGCAACGGTAACGGCAATGGAAACGGGAATGGGAATGGCAATGACTACGATGAATTGTCACCGTTAGCATCCGGACAGGAGAGAGGCTTCTGTAAAGCAAAGAACGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAATACAAGGGTTGTTTCATCAACTGCGGCAACAAATGTGAAGTCACTTGCAAGTGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAAAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCAGTCAGTGTCCCCACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATAGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTCCAAAGGCAATCTGGACTTGCTCAATACTGA
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

356

Amino Acids

39.3

Weight (kDa)

8.63

Isoelectric Point (pI)

19.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 291 - 347 1.9e-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) 788
Acc36I ACCTGC 1 cut(s) 1026
AccII CGCG 1 cut(s) 531
AccIII TCCGGA 1 cut(s) 197
AciI CCGC 2 cut(s) 324, 981
AclWI GGATC 2 cut(s) 389, 701
AcoI YGGCCR 1 cut(s) 699
AfaI GTAC 1 cut(s) 995
AfiI CCNNNNNNNGG 3 cut(s) 674, 690, 977
AgsI TTSAA 2 cut(s) 548, 725
AjnI CCWGG 1 cut(s) 931
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 2 cut(s) 607, 860
AlwI GGATC 2 cut(s) 389, 701
Aor13HI TCCGGA 1 cut(s) 197
AoxI GGCC 5 cut(s) 33, 82, 699, 794, 929
ApeKI GCWGC 1 cut(s) 590
ArsI GACNNNNNNTTYG 2 cut(s) 324, 356
AspS9I GGNCC 2 cut(s) 34, 82
AsuHPI GGTGA 4 cut(s) 177, 425, 662, 1008
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 1 cut(s) 602
BccI CCATC 8 cut(s) 268, 410, 641, 668, 772, 847, 970, 1012
BceAI ACGGC 2 cut(s) 121, 154
BciT130I CCWGG 1 cut(s) 933
BcoDI GTCTC 2 cut(s) 607, 860
BfaI CTAG 1 cut(s) 518
BfuAI ACCTGC 1 cut(s) 1026
BisI GCNGC 2 cut(s) 325, 591
BlsI GCNGC 2 cut(s) 326, 592
Bme1390I CCNGG 1 cut(s) 933
BmgT120I GGNCC 2 cut(s) 34, 82
BmiI GGNNCC 2 cut(s) 442, 1040
BmrFI CCNGG 1 cut(s) 933
BmsI GCATC 2 cut(s) 203, 957
BoxI GACNNNNGTC 1 cut(s) 251
BsaAI YACGTR 1 cut(s) 748
BsaJI CCNNGG 4 cut(s) 57, 85, 398, 436
BsaWI WCCGGW 1 cut(s) 197
Bsc4I CCNNNNNNNGG 3 cut(s) 674, 690, 977
Bse1I ACTGG 1 cut(s) 947
Bse3DI GCAATG 6 cut(s) 72, 97, 115, 121, 148, 172
BseAI TCCGGA 1 cut(s) 197
BseBI CCWGG 1 cut(s) 933
BseDI CCNNGG 4 cut(s) 57, 85, 398, 436
BseGI GGATG 3 cut(s) 194, 619, 652
BseLI CCNNNNNNNGG 3 cut(s) 674, 690, 977
BseMI GCAATG 6 cut(s) 72, 97, 115, 121, 148, 172
BseMII CTCAG 1 cut(s) 287
BseNI ACTGG 1 cut(s) 947
BseXI GCAGC 1 cut(s) 602
Bsh1236I CGCG 1 cut(s) 531
BshFI GGCC 5 cut(s) 35, 84, 701, 796, 931
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 1 cut(s) 198
BslFI GGGAC 1 cut(s) 650
BslI CCNNNNNNNGG 3 cut(s) 674, 690, 977
BsmAI GTCTC 2 cut(s) 607, 860
BsmFI GGGAC 1 cut(s) 650
BsmI GAATGC 1 cut(s) 272
BsnI GGCC 5 cut(s) 35, 84, 701, 796, 931
Bsp1286I GDGCHC 1 cut(s) 51
Bsp13I TCCGGA 1 cut(s) 197
Bsp143I GATC 3 cut(s) 394, 693, 895
Bsp19I CCATGG 2 cut(s) 57, 436
Bsp68I TCGCGA 1 cut(s) 531
BspACI CCGC 2 cut(s) 324, 981
BspANI GGCC 5 cut(s) 35, 84, 701, 796, 931
BspCNI CTCAG 1 cut(s) 286
BspEI TCCGGA 1 cut(s) 197
BspFNI CGCG 1 cut(s) 531
BspLI GGNNCC 2 cut(s) 442, 1040
BspMI ACCTGC 1 cut(s) 1026
BspPI GGATC 2 cut(s) 389, 701
BsrDI GCAATG 6 cut(s) 72, 97, 115, 121, 148, 172
BsrI ACTGG 1 cut(s) 947
BssECI CCNNGG 4 cut(s) 57, 85, 398, 436
BssMI GATC 3 cut(s) 394, 693, 895
BssT1I CCWWGG 4 cut(s) 57, 85, 398, 436
Bst2UI CCWGG 1 cut(s) 933
Bst4CI ACNGT 3 cut(s) 134, 189, 760
Bst6I CTCTTC 1 cut(s) 703
BstAPI GCANNNNNTGC 1 cut(s) 1032
BstBAI YACGTR 1 cut(s) 748
BstC8I GCNNGC 1 cut(s) 235
BstDEI CTNAG 3 cut(s) 11, 273, 862
BstDSI CCRYGG 2 cut(s) 57, 436
BstF5I GGATG 3 cut(s) 194, 619, 652
BstFNI CGCG 1 cut(s) 531
BstKTI GATC 3 cut(s) 397, 696, 898
BstMAI GTCTC 2 cut(s) 607, 860
BstMBI GATC 3 cut(s) 394, 693, 895
BstMWI GCNNNNNNNGC 3 cut(s) 126, 230, 1032
BstNI CCWGG 1 cut(s) 933
BstPAI GACNNNNGTC 1 cut(s) 251
BstSCI CCNGG 1 cut(s) 931
BstSNI TACGTA 1 cut(s) 748
BstUI CGCG 1 cut(s) 531
BstV1I GCAGC 1 cut(s) 602
BstXI CCANNNNNNTGG 1 cut(s) 92
BsuRI GGCC 5 cut(s) 35, 84, 701, 796, 931
BtgI CCRYGG 2 cut(s) 57, 436
BtsCI GGATG 3 cut(s) 194, 619, 652
BtsIMutI CAGTG 2 cut(s) 667, 669
BtuMI TCGCGA 1 cut(s) 531
BveI ACCTGC 1 cut(s) 1026
Cac8I GCNNGC 1 cut(s) 235
Cfr13I GGNCC 2 cut(s) 34, 82
CseI GACGC 1 cut(s) 635
Csp6I GTAC 1 cut(s) 994
CviAII CATG 6 cut(s) 58, 437, 540, 562, 634, 697
CviQI GTAC 1 cut(s) 994
DdeI CTNAG 3 cut(s) 11, 273, 862
DpnI GATC 3 cut(s) 396, 695, 897
DpnII GATC 3 cut(s) 394, 693, 895
DrdI GACNNNNNNGTC 1 cut(s) 788
DseDI GACNNNNNNGTC 1 cut(s) 788
EaeI YGGCCR 1 cut(s) 699
Eam1104I CTCTTC 1 cut(s) 703
EarI CTCTTC 1 cut(s) 703
EciI GGCGGA 1 cut(s) 996
Eco105I TACGTA 1 cut(s) 748
Eco130I CCWWGG 4 cut(s) 57, 85, 398, 436
Eco147I AGGCCT 1 cut(s) 796
EcoRII CCWGG 1 cut(s) 931
EcoT14I CCWWGG 4 cut(s) 57, 85, 398, 436
ErhI CCWWGG 4 cut(s) 57, 85, 398, 436
FaeI CATG 6 cut(s) 61, 440, 543, 565, 637, 700
FaqI GGGAC 1 cut(s) 650
FatI CATG 6 cut(s) 57, 436, 539, 561, 633, 696
Fnu4HI GCNGC 2 cut(s) 325, 591
FokI GGATG 3 cut(s) 181, 626, 659
Fsp4HI GCNGC 2 cut(s) 325, 591
FspBI CTAG 1 cut(s) 518
GluI GCNGC 2 cut(s) 325, 591
HaeIII GGCC 5 cut(s) 35, 84, 701, 796, 931
HapII CCGG 1 cut(s) 198
HgaI GACGC 1 cut(s) 635
Hin1II CATG 6 cut(s) 61, 440, 543, 565, 637, 700
HincII GTYRAC 1 cut(s) 625
HindII GTYRAC 1 cut(s) 625
HinfI GANTC 3 cut(s) 526, 600, 653
HpaII CCGG 1 cut(s) 198
HphI GGTGA 4 cut(s) 177, 425, 662, 1008
Hpy166II GTNNAC 2 cut(s) 625, 823
Hpy188I TCNGA 6 cut(s) 265, 276, 472, 844, 895, 966
Hpy188III TCNNGA 3 cut(s) 198, 530, 1053
Hpy8I GTNNAC 2 cut(s) 625, 823
HpyAV CCTTC 3 cut(s) 516, 698, 899
HpyCH4III ACNGT 3 cut(s) 134, 189, 760
HpyCH4IV ACGT 1 cut(s) 747
HpyCH4V TGCA 5 cut(s) 348, 494, 590, 1026, 1035
HpyF10VI GCNNNNNNNGC 3 cut(s) 126, 230, 1032
HpyF3I CTNAG 3 cut(s) 11, 273, 862
HpySE526I ACGT 1 cut(s) 747
Hsp92II CATG 6 cut(s) 61, 440, 543, 565, 637, 700
Kpn2I TCCGGA 1 cut(s) 197
Kzo9I GATC 3 cut(s) 394, 693, 895
LmnI GCTCC 2 cut(s) 440, 803
Lsp1109I GCAGC 1 cut(s) 602
LweI GCATC 2 cut(s) 203, 957
MaeI CTAG 1 cut(s) 518
MaeII ACGT 1 cut(s) 747
MaeIII GTNAC 5 cut(s) 18, 134, 183, 340, 754
MalI GATC 3 cut(s) 396, 695, 897
MboI GATC 3 cut(s) 394, 693, 895
MboII GAAGA 3 cut(s) 301, 720, 821
MhlI GDGCHC 1 cut(s) 51
MluCI AATT 3 cut(s) 179, 585, 872
MlyI GAGTC 3 cut(s) 520, 609, 662
MmeI TCCRAC 2 cut(s) 909, 937
MroI TCCGGA 1 cut(s) 197
MseI TTAA 1 cut(s) 951
MslI CAYNNNNRTG 1 cut(s) 265
MspI CCGG 1 cut(s) 198
MspR9I CCNGG 1 cut(s) 933
Mva1269I GAATGC 1 cut(s) 272
MvaI CCWGG 1 cut(s) 933
MvnI CGCG 1 cut(s) 531
MwoI GCNNNNNNNGC 3 cut(s) 126, 230, 1032
NcoI CCATGG 2 cut(s) 57, 436
NdeII GATC 3 cut(s) 394, 693, 895
NlaIII CATG 6 cut(s) 61, 440, 543, 565, 637, 700
NlaIV GGNNCC 2 cut(s) 442, 1040
NmuCI GTSAC 3 cut(s) 18, 183, 340
NruI TCGCGA 1 cut(s) 531
PceI AGGCCT 1 cut(s) 796
PctI GAATGC 1 cut(s) 272
PkrI GCNGC 2 cut(s) 326, 592
PleI GAGTC 3 cut(s) 520, 608, 661
PpsI GAGTC 3 cut(s) 520, 608, 661
Ppu21I YACGTR 1 cut(s) 748
PshAI GACNNNNGTC 1 cut(s) 251
Psp6I CCWGG 1 cut(s) 931
PspGI CCWGG 1 cut(s) 931
PspN4I GGNNCC 2 cut(s) 442, 1040
PspPI GGNCC 2 cut(s) 34, 82
PsrI GAACNNNNNNTAC 2 cut(s) 284, 316
RruI TCGCGA 1 cut(s) 531
RsaI GTAC 1 cut(s) 995
RsaNI GTAC 1 cut(s) 994
RseI CAYNNNNRTG 1 cut(s) 265
SaqAI TTAA 1 cut(s) 951
SatI GCNGC 2 cut(s) 325, 591
Sau3AI GATC 3 cut(s) 394, 693, 895
Sau96I GGNCC 2 cut(s) 34, 82
SchI GAGTC 3 cut(s) 520, 609, 662
ScrFI CCNGG 1 cut(s) 933
SduI GDGCHC 1 cut(s) 51
SfaNI GCATC 2 cut(s) 203, 957
SmiMI CAYNNNNRTG 1 cut(s) 265
SnaBI TACGTA 1 cut(s) 748
Sse9I AATT 3 cut(s) 179, 585, 872
SseBI AGGCCT 1 cut(s) 796
SsiI CCGC 2 cut(s) 324, 981
SspMI CTAG 1 cut(s) 518
StuI AGGCCT 1 cut(s) 796
StyD4I CCNGG 1 cut(s) 931
StyI CCWWGG 4 cut(s) 57, 85, 398, 436
TaaI ACNGT 3 cut(s) 134, 189, 760
TaiI ACGT 1 cut(s) 750
TaqI TCGA 2 cut(s) 511, 567
TasI AATT 3 cut(s) 179, 585, 872
TauI GCSGC 1 cut(s) 327
Tru1I TTAA 1 cut(s) 951
Tru9I TTAA 1 cut(s) 951
TscAI CASTG 2 cut(s) 667, 676
TseFI GTSAC 3 cut(s) 18, 183, 340
TseI GCWGC 1 cut(s) 590
Tsp45I GTSAC 3 cut(s) 18, 183, 340
TspDTI ATGAA 3 cut(s) 192, 304, 490
TspRI CASTG 2 cut(s) 667, 676
XcmI CCANNNNNNNNNTGG 1 cut(s) 1049
XspI CTAG 1 cut(s) 518
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.