RchiOBHm_Chr5g0059691

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0002778
Physical Location & Seq
Forward (+)
64747758 .. 64748948
1191 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ33628

Sequence Viewer

Length: 1011 bp
ATGTCACATACATTGGTGGCCCTCCTTGTTGTGCTCGTTTCCATGGAAGCAATGTCCTTTGTTCTGGGCCAAGGCAATGGAAATGGAAACGGGAATGGGAATGGCAATGACTACGATGAATTGTCACCGTTAGCATCCGGACAGGAGAGAGGCTTCTGTAAAGCAAAGAATGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAATACAAGGGTTGTTTCATCAACTGCGGCAACAAATGTGAAGTCACTTGCAAGTGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGTGGTGATGGTGTAATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAAAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCAGTCAGCATCCCCACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATTGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTTCGAAGGCAATCTGGACTTGCTCAATACTGA
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

336

Amino Acids

37.48

Weight (kDa)

8.63

Isoelectric Point (pI)

24.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 271 - 327 1.7e-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) 728
Acc36I ACCTGC 1 cut(s) 966
AccII CGCG 1 cut(s) 471
AccIII TCCGGA 1 cut(s) 137
AciI CCGC 2 cut(s) 264, 921
AclWI GGATC 2 cut(s) 329, 641
AcoI YGGCCR 1 cut(s) 639
AfaI GTAC 1 cut(s) 935
AfiI CCNNNNNNNGG 3 cut(s) 614, 630, 917
AgsI TTSAA 2 cut(s) 488, 665
AjnI CCWGG 1 cut(s) 871
Alw21I GWGCWC 1 cut(s) 36
Alw26I GTCTC 2 cut(s) 547, 800
AlwI GGATC 2 cut(s) 329, 641
Aor13HI TCCGGA 1 cut(s) 137
AoxI GGCC 5 cut(s) 18, 67, 639, 734, 869
ApeKI GCWGC 1 cut(s) 530
ArsI GACNNNNNNTTYG 2 cut(s) 264, 296
AspS9I GGNCC 2 cut(s) 19, 67
AsuHPI GGTGA 4 cut(s) 117, 365, 602, 948
AsuII TTCGAA 1 cut(s) 982
Bbv12I GWGCWC 1 cut(s) 36
BbvI GCAGC 1 cut(s) 542
BccI CCATC 8 cut(s) 208, 350, 581, 608, 712, 787, 910, 952
BciT130I CCWGG 1 cut(s) 873
BcoDI GTCTC 2 cut(s) 547, 800
BfaI CTAG 1 cut(s) 458
BfuAI ACCTGC 1 cut(s) 966
BisI GCNGC 2 cut(s) 265, 531
BlsI GCNGC 2 cut(s) 266, 532
Bme1390I CCNGG 1 cut(s) 873
BmgT120I GGNCC 2 cut(s) 19, 67
BmiI GGNNCC 1 cut(s) 382
BmrFI CCNGG 1 cut(s) 873
BmsI GCATC 3 cut(s) 143, 612, 897
BoxI GACNNNNGTC 1 cut(s) 191
Bpu14I TTCGAA 1 cut(s) 982
BsaAI YACGTR 1 cut(s) 688
BsaJI CCNNGG 4 cut(s) 42, 70, 338, 376
BsaWI WCCGGW 1 cut(s) 137
Bsc4I CCNNNNNNNGG 3 cut(s) 614, 630, 917
Bse1I ACTGG 1 cut(s) 887
Bse3DI GCAATG 3 cut(s) 57, 82, 112
BseAI TCCGGA 1 cut(s) 137
BseBI CCWGG 1 cut(s) 873
BseDI CCNNGG 4 cut(s) 42, 70, 338, 376
BseGI GGATG 4 cut(s) 134, 559, 592, 603
BseLI CCNNNNNNNGG 3 cut(s) 614, 630, 917
BseMI GCAATG 3 cut(s) 57, 82, 112
BseMII CTCAG 1 cut(s) 227
BseNI ACTGG 1 cut(s) 887
BseXI GCAGC 1 cut(s) 542
Bsh1236I CGCG 1 cut(s) 471
BshFI GGCC 5 cut(s) 20, 69, 641, 736, 871
BsiHKAI GWGCWC 1 cut(s) 36
BsiSI CCGG 1 cut(s) 138
BslI CCNNNNNNNGG 3 cut(s) 614, 630, 917
BsmAI GTCTC 2 cut(s) 547, 800
BsmI GAATGC 2 cut(s) 175, 212
BsnI GGCC 5 cut(s) 20, 69, 641, 736, 871
Bsp119I TTCGAA 1 cut(s) 982
Bsp1286I GDGCHC 1 cut(s) 36
Bsp13I TCCGGA 1 cut(s) 137
Bsp143I GATC 3 cut(s) 334, 633, 835
Bsp19I CCATGG 2 cut(s) 42, 376
Bsp68I TCGCGA 1 cut(s) 471
BspACI CCGC 2 cut(s) 264, 921
BspANI GGCC 5 cut(s) 20, 69, 641, 736, 871
BspCNI CTCAG 1 cut(s) 226
BspEI TCCGGA 1 cut(s) 137
BspFNI CGCG 1 cut(s) 471
BspLI GGNNCC 1 cut(s) 382
BspMI ACCTGC 1 cut(s) 966
BspPI GGATC 2 cut(s) 329, 641
BspT104I TTCGAA 1 cut(s) 982
BsrDI GCAATG 3 cut(s) 57, 82, 112
BsrI ACTGG 1 cut(s) 887
BssECI CCNNGG 4 cut(s) 42, 70, 338, 376
BssMI GATC 3 cut(s) 334, 633, 835
BssT1I CCWWGG 4 cut(s) 42, 70, 338, 376
Bst2UI CCWGG 1 cut(s) 873
Bst4CI ACNGT 2 cut(s) 129, 700
Bst6I CTCTTC 1 cut(s) 643
BstAPI GCANNNNNTGC 2 cut(s) 170, 972
BstBAI YACGTR 1 cut(s) 688
BstBI TTCGAA 1 cut(s) 982
BstC8I GCNNGC 1 cut(s) 175
BstDEI CTNAG 2 cut(s) 213, 802
BstDSI CCRYGG 2 cut(s) 42, 376
BstF5I GGATG 4 cut(s) 134, 559, 592, 603
BstFNI CGCG 1 cut(s) 471
BstKTI GATC 3 cut(s) 337, 636, 838
BstMAI GTCTC 2 cut(s) 547, 800
BstMBI GATC 3 cut(s) 334, 633, 835
BstMWI GCNNNNNNNGC 2 cut(s) 170, 972
BstNI CCWGG 1 cut(s) 873
BstPAI GACNNNNGTC 1 cut(s) 191
BstSCI CCNGG 1 cut(s) 871
BstSNI TACGTA 1 cut(s) 688
BstUI CGCG 1 cut(s) 471
BstV1I GCAGC 1 cut(s) 542
BstXI CCANNNNNNTGG 1 cut(s) 77
BsuRI GGCC 5 cut(s) 20, 69, 641, 736, 871
BtgI CCRYGG 2 cut(s) 42, 376
BtsCI GGATG 4 cut(s) 134, 559, 592, 603
BtsIMutI CAGTG 1 cut(s) 609
BtuMI TCGCGA 1 cut(s) 471
BveI ACCTGC 1 cut(s) 966
Cac8I GCNNGC 1 cut(s) 175
Cfr13I GGNCC 2 cut(s) 19, 67
CseI GACGC 1 cut(s) 575
Csp6I GTAC 1 cut(s) 934
CviAII CATG 6 cut(s) 43, 377, 480, 502, 574, 637
CviQI GTAC 1 cut(s) 934
DdeI CTNAG 2 cut(s) 213, 802
DpnI GATC 3 cut(s) 336, 635, 837
DpnII GATC 3 cut(s) 334, 633, 835
DrdI GACNNNNNNGTC 1 cut(s) 728
DseDI GACNNNNNNGTC 1 cut(s) 728
EaeI YGGCCR 1 cut(s) 639
Eam1104I CTCTTC 1 cut(s) 643
EarI CTCTTC 1 cut(s) 643
EciI GGCGGA 1 cut(s) 936
Eco105I TACGTA 1 cut(s) 688
Eco130I CCWWGG 4 cut(s) 42, 70, 338, 376
Eco147I AGGCCT 1 cut(s) 736
EcoRII CCWGG 1 cut(s) 871
EcoT14I CCWWGG 4 cut(s) 42, 70, 338, 376
ErhI CCWWGG 4 cut(s) 42, 70, 338, 376
FaeI CATG 6 cut(s) 46, 380, 483, 505, 577, 640
FatI CATG 6 cut(s) 42, 376, 479, 501, 573, 636
Fnu4HI GCNGC 2 cut(s) 265, 531
FokI GGATG 4 cut(s) 121, 566, 590, 599
Fsp4HI GCNGC 2 cut(s) 265, 531
FspBI CTAG 1 cut(s) 458
GluI GCNGC 2 cut(s) 265, 531
HaeIII GGCC 5 cut(s) 20, 69, 641, 736, 871
HapII CCGG 1 cut(s) 138
HgaI GACGC 1 cut(s) 575
Hin1II CATG 6 cut(s) 46, 380, 483, 505, 577, 640
HincII GTYRAC 1 cut(s) 565
HindII GTYRAC 1 cut(s) 565
HinfI GANTC 3 cut(s) 466, 540, 593
HpaII CCGG 1 cut(s) 138
HphI GGTGA 4 cut(s) 117, 365, 602, 948
Hpy166II GTNNAC 2 cut(s) 565, 763
Hpy188I TCNGA 6 cut(s) 205, 216, 412, 784, 835, 906
Hpy188III TCNNGA 3 cut(s) 138, 470, 993
Hpy8I GTNNAC 2 cut(s) 565, 763
HpyAV CCTTC 4 cut(s) 456, 638, 839, 978
HpyCH4III ACNGT 2 cut(s) 129, 700
HpyCH4IV ACGT 1 cut(s) 687
HpyCH4V TGCA 5 cut(s) 288, 434, 530, 966, 975
HpyF10VI GCNNNNNNNGC 2 cut(s) 170, 972
HpyF3I CTNAG 2 cut(s) 213, 802
HpySE526I ACGT 1 cut(s) 687
Hsp92II CATG 6 cut(s) 46, 380, 483, 505, 577, 640
Kpn2I TCCGGA 1 cut(s) 137
Kzo9I GATC 3 cut(s) 334, 633, 835
LmnI GCTCC 2 cut(s) 380, 743
Lsp1109I GCAGC 1 cut(s) 542
LweI GCATC 3 cut(s) 143, 612, 897
MaeI CTAG 1 cut(s) 458
MaeII ACGT 1 cut(s) 687
MaeIII GTNAC 4 cut(s) 3, 123, 280, 694
MalI GATC 3 cut(s) 336, 635, 837
MboI GATC 3 cut(s) 334, 633, 835
MboII GAAGA 3 cut(s) 241, 660, 761
MhlI GDGCHC 1 cut(s) 36
MluCI AATT 4 cut(s) 119, 525, 657, 812
MlyI GAGTC 3 cut(s) 460, 549, 602
MmeI TCCRAC 2 cut(s) 849, 877
MroI TCCGGA 1 cut(s) 137
MseI TTAA 1 cut(s) 891
MslI CAYNNNNRTG 1 cut(s) 205
MspI CCGG 1 cut(s) 138
MspR9I CCNGG 1 cut(s) 873
Mva1269I GAATGC 2 cut(s) 175, 212
MvaI CCWGG 1 cut(s) 873
MvnI CGCG 1 cut(s) 471
MwoI GCNNNNNNNGC 2 cut(s) 170, 972
NcoI CCATGG 2 cut(s) 42, 376
NdeII GATC 3 cut(s) 334, 633, 835
NlaIII CATG 6 cut(s) 46, 380, 483, 505, 577, 640
NlaIV GGNNCC 1 cut(s) 382
NmuCI GTSAC 3 cut(s) 3, 123, 280
NruI TCGCGA 1 cut(s) 471
NspV TTCGAA 1 cut(s) 982
PceI AGGCCT 1 cut(s) 736
PctI GAATGC 2 cut(s) 175, 212
PkrI GCNGC 2 cut(s) 266, 532
PleI GAGTC 3 cut(s) 460, 548, 601
PpsI GAGTC 3 cut(s) 460, 548, 601
Ppu21I YACGTR 1 cut(s) 688
PshAI GACNNNNGTC 1 cut(s) 191
Psp6I CCWGG 1 cut(s) 871
PspGI CCWGG 1 cut(s) 871
PspN4I GGNNCC 1 cut(s) 382
PspPI GGNCC 2 cut(s) 19, 67
PsrI GAACNNNNNNTAC 2 cut(s) 224, 256
RruI TCGCGA 1 cut(s) 471
RsaI GTAC 1 cut(s) 935
RsaNI GTAC 1 cut(s) 934
RseI CAYNNNNRTG 1 cut(s) 205
SaqAI TTAA 1 cut(s) 891
SatI GCNGC 2 cut(s) 265, 531
Sau3AI GATC 3 cut(s) 334, 633, 835
Sau96I GGNCC 2 cut(s) 19, 67
SchI GAGTC 3 cut(s) 460, 549, 602
ScrFI CCNGG 1 cut(s) 873
SduI GDGCHC 1 cut(s) 36
SfaNI GCATC 3 cut(s) 143, 612, 897
SfuI TTCGAA 1 cut(s) 982
SmiMI CAYNNNNRTG 1 cut(s) 205
SnaBI TACGTA 1 cut(s) 688
Sse9I AATT 4 cut(s) 119, 525, 657, 812
SseBI AGGCCT 1 cut(s) 736
SsiI CCGC 2 cut(s) 264, 921
SspMI CTAG 1 cut(s) 458
StuI AGGCCT 1 cut(s) 736
StyD4I CCNGG 1 cut(s) 871
StyI CCWWGG 4 cut(s) 42, 70, 338, 376
TaaI ACNGT 2 cut(s) 129, 700
TaiI ACGT 1 cut(s) 690
TaqI TCGA 3 cut(s) 451, 507, 982
TasI AATT 4 cut(s) 119, 525, 657, 812
TauI GCSGC 1 cut(s) 267
Tru1I TTAA 1 cut(s) 891
Tru9I TTAA 1 cut(s) 891
TscAI CASTG 1 cut(s) 616
TseFI GTSAC 3 cut(s) 3, 123, 280
TseI GCWGC 1 cut(s) 530
Tsp45I GTSAC 3 cut(s) 3, 123, 280
TspDTI ATGAA 3 cut(s) 132, 244, 430
TspRI CASTG 1 cut(s) 616
XspI CTAG 1 cut(s) 458
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.