RchiOBHm_Chr3g0488021

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0006963
Physical Location & Seq
Forward (+)
35522838 .. 35524053
1216 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ45243

Sequence Viewer

Length: 927 bp
ATGTCAAACACAAACAAACTCGATTTTGTTCCATTGGATTATGCAGGCAAAAGGTACTTAATTTGGGTCACTGATGTCGAGATCCACCTCATTGCCCGTGATTTATTGCATACAATCCAAGAGCTTTGTCTTATAGAAACAGCTCCAGACCCTCAAACTGAGAAAGATAATTCCAAGGCACTTGCCTTTATGAAACGTCACATGGATAGTGACCTCCAGTTTGAGTTCATAAATGAGGATAGCGCCATAAAGCTTTGGCATGCGCTTCGCGAACGATATGGCAATGTTCGTGACTCCATTCTTCCGAATACAGAAGCAGAATGGAACGATCTTCGCTTCTATGAATTTGACACTGTCATGCAATTTTATTCGGAAGCTCTCAGCATCAAAGCAATGATGCGTCTCTGTGGAAAAACAATCACAGAAGACCAATTGATTGAGAAAACCCTCAATACCTTCCCCGTCTATGCTATGAGGTCCTCTGACTTATTCCGGACTCATGTAAATGCAAGGCGAATCACAAGTTTTCAACAGCTTATTGAAGCTATGGTCACTACTGAAAGACATGGCAATGAACTTGTGAAAAGAAGATTTGATAGGCTTCAAGATAGCTATCAAGAGCATCGTCCTATGGCTAGAGAAAGTCGCCATCGACGTCATGATCCATACGATCGAAATGCTCAAGAAGGTAATCGCTCAAGGCGACAATCCCACGACCGTAGGAGGCGTGATTTTGAGGGAAATAGGGTTGGAAACCATGGAGCCAACGTTGGCCATGGGCACCACTTTCCAACGCCACCAGTCCTAGGGACTATGCATATTGCGCCAATGCGCCTCAATCAAGGGAGAATCCTCTTTATGGTGTCTATTTCTGATATGGAACGTCTGATCAATGGACCTGAATTTGCAATGTACCTACGAAGGTAG
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

308

Amino Acids

36.4

Weight (kDa)

8.5

Isoelectric Point (pI)

66.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 27 - 154 3.5e-07 gag-polypeptide of LTR copia-type
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)
AatII GACGTC 1 cut(s) 658
AccB1I GGYRCC 1 cut(s) 780
AccII CGCG 1 cut(s) 270
AccIII TCCGGA 1 cut(s) 492
AclI AACGTT 1 cut(s) 768
AclWI GGATC 2 cut(s) 76, 656
AcoI YGGCCR 1 cut(s) 772
AcsI RAATTY 2 cut(s) 344, 902
AcyI GRCGYC 1 cut(s) 655
AfaI GTAC 2 cut(s) 56, 914
AfiI CCNNNNNNNGG 2 cut(s) 806, 859
AgsI TTSAA 3 cut(s) 530, 542, 605
AluBI AGCT 7 cut(s) 124, 143, 253, 377, 535, 545, 612
AluI AGCT 7 cut(s) 124, 143, 253, 377, 535, 545, 612
Alw26I GTCTC 1 cut(s) 407
AlwI GGATC 2 cut(s) 76, 656
Aor13HI TCCGGA 1 cut(s) 492
AoxI GGCC 1 cut(s) 772
ApoI RAATTY 2 cut(s) 344, 902
ArsI GACNNNNNNTTYG 2 cut(s) 203, 235
AspA2I CCTAGG 1 cut(s) 805
AspLEI GCGC 4 cut(s) 245, 265, 826, 834
AspS9I GGNCC 2 cut(s) 477, 896
AvaII GGWCC 2 cut(s) 477, 896
AvrII CCTAGG 1 cut(s) 805
BaeGI GKGCMC 1 cut(s) 783
BalI TGGCCA 1 cut(s) 774
BanI GGYRCC 1 cut(s) 780
BbsI GAAGAC 1 cut(s) 432
BccI CCATC 1 cut(s) 657
BcgI CGANNNNNNTGC 4 cut(s) 248, 282, 659, 693
BclI TGATCA 1 cut(s) 888
BcoDI GTCTC 1 cut(s) 407
BfaI CTAG 2 cut(s) 636, 806
BfoI RGCGCY 1 cut(s) 246
BlnI CCTAGG 1 cut(s) 805
Bme18I GGWCC 2 cut(s) 477, 896
BmgT120I GGNCC 2 cut(s) 477, 896
BmiI GGNNCC 2 cut(s) 763, 782
BmsI GCATC 3 cut(s) 387, 393, 631
BpiI GAAGAC 1 cut(s) 432
BpmI CTGGAG 2 cut(s) 129, 200
BpuEI CTTGAG 2 cut(s) 666, 682
BsaBI GATNNNNATC 1 cut(s) 612
BsaHI GRCGYC 1 cut(s) 655
BsaJI CCNNGG 4 cut(s) 174, 757, 775, 805
BsaWI WCCGGW 1 cut(s) 492
BsaXI ACNNNNNCTCC 2 cut(s) 753, 783
Bsc4I CCNNNNNNNGG 2 cut(s) 806, 859
Bse1I ACTGG 2 cut(s) 217, 800
Bse3DI GCAATG 5 cut(s) 90, 289, 399, 577, 915
Bse8I GATNNNNATC 1 cut(s) 612
BseAI TCCGGA 1 cut(s) 492
BseDI CCNNGG 4 cut(s) 174, 757, 775, 805
BseJI GATNNNNATC 1 cut(s) 612
BseLI CCNNNNNNNGG 2 cut(s) 806, 859
BseMI GCAATG 5 cut(s) 90, 289, 399, 577, 915
BseMII CTCAG 2 cut(s) 150, 394
BseNI ACTGG 2 cut(s) 217, 800
BseSI GKGCMC 1 cut(s) 783
Bsh1236I CGCG 1 cut(s) 270
Bsh1285I CGRYCG 2 cut(s) 673, 718
BshFI GGCC 1 cut(s) 774
BshNI GGYRCC 1 cut(s) 780
BsiEI CGRYCG 2 cut(s) 673, 718
BsiSI CCGG 1 cut(s) 493
BslFI GGGAC 1 cut(s) 823
BslI CCNNNNNNNGG 2 cut(s) 806, 859
BsmAI GTCTC 1 cut(s) 407
BsmBI CGTCTC 1 cut(s) 407
BsmFI GGGAC 1 cut(s) 823
BsnI GGCC 1 cut(s) 774
Bsp1286I GDGCHC 1 cut(s) 783
Bsp13I TCCGGA 1 cut(s) 492
Bsp143I GATC 5 cut(s) 81, 328, 661, 670, 888
Bsp19I CCATGG 2 cut(s) 757, 775
Bsp68I TCGCGA 1 cut(s) 270
BspANI GGCC 1 cut(s) 774
BspCNI CTCAG 2 cut(s) 151, 393
BspEI TCCGGA 1 cut(s) 492
BspFNI CGCG 1 cut(s) 270
BspHI TCATGA 1 cut(s) 658
BspLI GGNNCC 2 cut(s) 763, 782
BspPI GGATC 2 cut(s) 76, 656
BspT107I GGYRCC 1 cut(s) 780
BsrDI GCAATG 5 cut(s) 90, 289, 399, 577, 915
BsrI ACTGG 2 cut(s) 217, 800
BssECI CCNNGG 4 cut(s) 174, 757, 775, 805
BssMI GATC 5 cut(s) 81, 328, 661, 670, 888
BssNI GRCGYC 1 cut(s) 655
BssT1I CCWWGG 4 cut(s) 174, 757, 775, 805
Bst4CI ACNGT 2 cut(s) 355, 719
BstACI GRCGYC 1 cut(s) 655
BstC8I GCNNGC 2 cut(s) 46, 261
BstDEI CTNAG 2 cut(s) 159, 380
BstDSI CCRYGG 2 cut(s) 757, 775
BstFNI CGCG 1 cut(s) 270
BstH2I RGCGCY 1 cut(s) 246
BstHHI GCGC 4 cut(s) 245, 265, 826, 834
BstKTI GATC 5 cut(s) 84, 331, 664, 673, 891
BstMAI GTCTC 1 cut(s) 407
BstMBI GATC 5 cut(s) 81, 328, 661, 670, 888
BstMCI CGRYCG 2 cut(s) 673, 718
BstMWI GCNNNNNNNGC 1 cut(s) 823
BstNSI RCATGY 1 cut(s) 263
BstSLI GKGCMC 1 cut(s) 783
BstUI CGCG 1 cut(s) 270
BstV2I GAAGAC 1 cut(s) 432
BstX2I RGATCY 1 cut(s) 81
BstYI RGATCY 1 cut(s) 81
BsuRI GGCC 1 cut(s) 774
BtgI CCRYGG 2 cut(s) 757, 775
BtsIMutI CAGTG 2 cut(s) 69, 351
BtuMI TCGCGA 1 cut(s) 270
Cac8I GCNNGC 2 cut(s) 46, 261
CciI TCATGA 1 cut(s) 658
CfoI GCGC 4 cut(s) 245, 265, 826, 834
Cfr13I GGNCC 2 cut(s) 477, 896
CseI GACGC 1 cut(s) 389
Csp6I GTAC 2 cut(s) 55, 913
CviAII CATG 8 cut(s) 202, 260, 358, 500, 566, 659, 758, 776
CviQI GTAC 2 cut(s) 55, 913
DdeI CTNAG 2 cut(s) 159, 380
DpnI GATC 5 cut(s) 83, 330, 663, 672, 890
DpnII GATC 5 cut(s) 81, 328, 661, 670, 888
EaeI YGGCCR 1 cut(s) 772
Eco130I CCWWGG 4 cut(s) 174, 757, 775, 805
Eco47I GGWCC 2 cut(s) 477, 896
EcoO109I RGGNCCY 1 cut(s) 477
EcoT14I CCWWGG 4 cut(s) 174, 757, 775, 805
EcoT22I ATGCAT 1 cut(s) 819
ErhI CCWWGG 4 cut(s) 174, 757, 775, 805
Esp3I CGTCTC 1 cut(s) 407
FaeI CATG 8 cut(s) 205, 263, 361, 503, 569, 662, 761, 779
FaqI GGGAC 1 cut(s) 823
FatI CATG 8 cut(s) 201, 259, 357, 499, 565, 658, 757, 775
FbaI TGATCA 1 cut(s) 888
FspBI CTAG 2 cut(s) 636, 806
GlaI GCGC 4 cut(s) 244, 264, 825, 833
GsuI CTGGAG 2 cut(s) 129, 200
HaeII RGCGCY 1 cut(s) 246
HaeIII GGCC 1 cut(s) 774
HapII CCGG 1 cut(s) 493
HgaI GACGC 1 cut(s) 389
HhaI GCGC 4 cut(s) 245, 265, 826, 834
Hin1I GRCGYC 1 cut(s) 655
Hin1II CATG 8 cut(s) 205, 263, 361, 503, 569, 662, 761, 779
Hin6I GCGC 4 cut(s) 243, 263, 824, 832
HinP1I GCGC 4 cut(s) 243, 263, 824, 832
HindIII AAGCTT 1 cut(s) 251
HinfI GANTC 4 cut(s) 293, 496, 516, 849
HpaII CCGG 1 cut(s) 493
Hpy188I TCNGA 5 cut(s) 306, 373, 484, 874, 888
Hpy188III TCNNGA 9 cut(s) 79, 146, 269, 290, 493, 605, 617, 659, 683
Hpy99I CGWCG 1 cut(s) 657
HpyAV CCTTC 3 cut(s) 466, 680, 915
HpyCH4III ACNGT 2 cut(s) 355, 719
HpyCH4IV ACGT 4 cut(s) 196, 655, 768, 883
HpyCH4V TGCA 6 cut(s) 44, 109, 361, 509, 817, 908
HpyF10VI GCNNNNNNNGC 1 cut(s) 823
HpyF3I CTNAG 2 cut(s) 159, 380
HpySE526I ACGT 4 cut(s) 196, 655, 768, 883
Hsp92I GRCGYC 1 cut(s) 655
Hsp92II CATG 8 cut(s) 205, 263, 361, 503, 569, 662, 761, 779
HspAI GCGC 4 cut(s) 243, 263, 824, 832
Kpn2I TCCGGA 1 cut(s) 492
Ksp22I TGATCA 1 cut(s) 888
Kzo9I GATC 5 cut(s) 81, 328, 661, 670, 888
LmnI GCTCC 2 cut(s) 148, 761
LpnPI CCDG 6 cut(s) 30, 159, 230, 506, 813, 912
LweI GCATC 3 cut(s) 387, 393, 631
MaeI CTAG 2 cut(s) 636, 806
MaeII ACGT 4 cut(s) 196, 655, 768, 883
MaeIII GTNAC 5 cut(s) 67, 197, 209, 290, 550
MalI GATC 5 cut(s) 83, 330, 663, 672, 890
MboI GATC 5 cut(s) 81, 328, 661, 670, 888
MboII GAAGA 4 cut(s) 293, 323, 437, 600
MfeI CAATTG 1 cut(s) 431
MflI RGATCY 1 cut(s) 81
MhlI GDGCHC 1 cut(s) 783
MlsI TGGCCA 1 cut(s) 774
MluCI AATT 6 cut(s) 60, 169, 344, 362, 431, 902
MluNI TGGCCA 1 cut(s) 774
MlyI GAGTC 2 cut(s) 287, 490
MmeI TCCRAC 2 cut(s) 730, 815
Mox20I TGGCCA 1 cut(s) 774
Mph1103I ATGCAT 1 cut(s) 819
MroI TCCGGA 1 cut(s) 492
MscI TGGCCA 1 cut(s) 774
MseI TTAA 1 cut(s) 59
MslI CAYNNNNRTG 3 cut(s) 356, 504, 570
Msp20I TGGCCA 1 cut(s) 774
MspI CCGG 1 cut(s) 493
MunI CAATTG 1 cut(s) 431
MvnI CGCG 1 cut(s) 270
MwoI GCNNNNNNNGC 1 cut(s) 823
NcoI CCATGG 2 cut(s) 757, 775
NdeII GATC 5 cut(s) 81, 328, 661, 670, 888
NlaIII CATG 8 cut(s) 205, 263, 361, 503, 569, 662, 761, 779
NlaIV GGNNCC 2 cut(s) 763, 782
NmuCI GTSAC 5 cut(s) 67, 197, 209, 290, 550
NruI TCGCGA 1 cut(s) 270
NsiI ATGCAT 1 cut(s) 819
NspI RCATGY 1 cut(s) 263
PaeI GCATGC 1 cut(s) 263
PagI TCATGA 1 cut(s) 658
PcsI WCGNNNNNNNCGW 2 cut(s) 652, 700
PfeI GAWTC 2 cut(s) 516, 849
PflFI GACNNNGTC 1 cut(s) 353
Ple19I CGATCG 1 cut(s) 673
PleI GAGTC 2 cut(s) 287, 490
PpsI GAGTC 2 cut(s) 287, 490
PpuMI RGGWCCY 1 cut(s) 477
Psp1406I AACGTT 1 cut(s) 768
Psp5II RGGWCCY 1 cut(s) 477
PspN4I GGNNCC 2 cut(s) 763, 782
PspPI GGNCC 2 cut(s) 477, 896
PspPPI RGGWCCY 1 cut(s) 477
PsuI RGATCY 1 cut(s) 81
PsyI GACNNNGTC 1 cut(s) 353
PvuI CGATCG 1 cut(s) 673
RruI TCGCGA 1 cut(s) 270
RsaI GTAC 2 cut(s) 56, 914
RsaNI GTAC 2 cut(s) 55, 913
RseI CAYNNNNRTG 3 cut(s) 356, 504, 570
SaqAI TTAA 1 cut(s) 59
Sau3AI GATC 5 cut(s) 81, 328, 661, 670, 888
Sau96I GGNCC 2 cut(s) 477, 896
SchI GAGTC 2 cut(s) 287, 490
SduI GDGCHC 1 cut(s) 783
SfaNI GCATC 3 cut(s) 387, 393, 631
SinI GGWCC 2 cut(s) 477, 896
SmiMI CAYNNNNRTG 3 cut(s) 356, 504, 570
SmlI CTYRAG 2 cut(s) 681, 697
SmoI CTYRAG 2 cut(s) 681, 697
SphI GCATGC 1 cut(s) 263
Sse9I AATT 6 cut(s) 60, 169, 344, 362, 431, 902
SspMI CTAG 2 cut(s) 636, 806
StyI CCWWGG 4 cut(s) 174, 757, 775, 805
TaaI ACNGT 2 cut(s) 355, 719
TaiI ACGT 4 cut(s) 199, 658, 771, 886
TaqI TCGA 4 cut(s) 21, 78, 652, 673
TasI AATT 6 cut(s) 60, 169, 344, 362, 431, 902
TfiI GAWTC 2 cut(s) 516, 849
Tru1I TTAA 1 cut(s) 59
Tru9I TTAA 1 cut(s) 59
TscAI CASTG 2 cut(s) 76, 358
TseFI GTSAC 5 cut(s) 67, 197, 209, 290, 550
Tsp45I GTSAC 5 cut(s) 67, 197, 209, 290, 550
TspDTI ATGAA 4 cut(s) 206, 217, 357, 588
TspRI CASTG 2 cut(s) 76, 358
Tth111I GACNNNGTC 1 cut(s) 353
VpaK11BI GGWCC 2 cut(s) 477, 896
XapI RAATTY 2 cut(s) 344, 902
XceI RCATGY 1 cut(s) 263
XmaJI CCTAGG 1 cut(s) 805
XspI CTAG 2 cut(s) 636, 806
ZraI GACGTC 1 cut(s) 656
Zsp2I ATGCAT 1 cut(s) 819
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.