RchiOBHm_Chr5g0030901

Polynucleotide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0005030
Physical Location & Seq
Reverse (-)
24552208 .. 24557114
4907 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31019

Sequence Viewer

Length: 1155 bp
ATGCTACCCATCGCAATTGTCTGTAAATCGATCATCTCTTGCCTAATCATCCCCGCCTTCCCAAAACCCCTAATTCCGAGTCATTCTCCGAAACGTTTCTTCCAAACACCGAAACGTTTCGCCTGTATTCGCTCCCAAAAACCCCCAATGTCTTCTTCTTCTTCTTCGACCCATGTCACCGCCGAGTACGCCAAGTCCAACAGGTCCTCTTGCAAGAAGTGCTCGAAAAAGATCGAGGCCAAAGCTCTGAGGCTGGGCTTGGTCACCAGAGACGCGCGTGGGTTTGACGCGATCAAGTGGCACCACCTGGGTTGCTTCAGTTTTGGGTCCGAGTTGGTTGCTTCGGTTGACAAGATTAAAGGGTTTCAGTCTCTGAAGAGCAGTGATCAGGAAGCTTTGAAGAATTTGGTGGATGAATTTGAGAAATCCAATGAGGAGGATTCAAATGGAAAGAAAGGTTCTCTAAAACAAAAGGTTTGTGAAGTAGATGAAGATGAAAATGAAGTAGGGGAAAGGGATTTGAAGAAAGCGAAGGTATCTAACCTGGAAATATCCTTTTCAGTGTCTGATGTGAAGGACAAGTACAAGGAAGCAACTCTTCCACCTAAATGGAAGGCATTTCAGACTATCATATTTCTTGAAAGGGATGATGGTCTGCATGAGTCAAGTAAAATTGCTGCTTTTGATTTTGATGGATGTCTTGCAAATACTGATGTTAGGAGAGTCGGTGCTGATGCTTGGTCCCTAATGTATCCTTCAATACCTGATAAACTACGGAGCTTGTATGAGGATGGCTACAAGCTGGTAATCTTCACGAATGAAGCCAACATTGAGCGCTGGAAAAATAAGAGACAAGTAGCTGTGGACTCAAAAATTGGACGTCTCAACGACTTTATTAAGGAAGTGAAGGTCCCAATTCAGGTTTTCATAGCTTGTGGGACGAGTCAAGGAGAAGACCCCTTTCGCAAACCCAAACCGGGGTTGTGGCATATGTTGGAACAACACTTCAACTCTGGCATTTCCATTGATATGAATCAATCTTTTTATGTTGGTGATGCTGCTGGAAGAAGCAATGATCACAGTGATGCTGATCTTAAGTTTGCAGAGGCCAATGGTTTAAAGTTTTATGTCCCAGAGGATTTCTTTGAAGCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006281 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006974 GO:0006979 GO:0008150 GO:0008152 GO:0009117 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010638 GO:0010835 GO:0010836 GO:0016301 GO:0016310 GO:0016311 GO:0016740 GO:0016772 GO:0016773 GO:0016787 GO:0016788 GO:0016791 GO:0019205 GO:0019219 GO:0019222 GO:0019637 GO:0031323 GO:0031324 GO:0031325 GO:0031326 GO:0031328 GO:0031399 GO:0031400 GO:0031974 GO:0031981 GO:0032204 GO:0032206 GO:0032210 GO:0032212 GO:0032268 GO:0032269 GO:0033043 GO:0033044 GO:0033554 GO:0034641 GO:0042578 GO:0042769 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044093 GO:0044237 GO:0044238 GO:0044260 GO:0044281 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0045935 GO:0046403 GO:0046404 GO:0046483 GO:0046939 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051128 GO:0051130 GO:0051171 GO:0051172 GO:0051173 GO:0051246 GO:0051248 GO:0051338 GO:0051347 GO:0051606 GO:0051716 GO:0051731 GO:0051733 GO:0051734 GO:0051972 GO:0051973 GO:0055086 GO:0060255 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0098501 GO:0098502 GO:0098503 GO:0098504 GO:0098506 GO:0098518 GO:1901360 GO:1901363 GO:1904353 GO:1904355 GO:1904356 GO:1904358 GO:2000112 GO:2000278 GO:2000573 GO:2001252
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PNK3P zf-PARP

Protein Analysis

384

Amino Acids

43.14

Weight (kDa)

8.41

Isoelectric Point (pI)

45.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-PARP PF00645 62 - 136 2.3e-17 Poly(ADP-ribose) polymerase and DNA-Ligase Zn-finger region
PNK3P PF08645 224 - 382 2.5e-46 Polynucleotide kinase 3 phosphatase
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) 883
AccB1I GGYRCC 1 cut(s) 300
AccII CGCG 3 cut(s) 275, 277, 290
AciI CCGC 2 cut(s) 54, 180
AclI AACGTT 2 cut(s) 94, 115
AcsI RAATTY 2 cut(s) 403, 416
AcuI CTGAAG 2 cut(s) 301, 395
AcyI GRCGYC 1 cut(s) 880
AfaI GTAC 2 cut(s) 188, 584
AfeI AGCGCT 1 cut(s) 836
AfiI CCNNNNNNNGG 3 cut(s) 919, 977, 978
AflII CTTAAG 1 cut(s) 1094
AgsI TTSAA 7 cut(s) 400, 444, 523, 641, 759, 1009, 1148
AjnI CCWGG 2 cut(s) 306, 543
AjuI GAANNNNNNNTTGG 2 cut(s) 139, 171
AluBI AGCT 7 cut(s) 245, 395, 780, 802, 860, 932, 1151
AluI AGCT 7 cut(s) 245, 395, 780, 802, 860, 932, 1151
Alw21I GWGCWC 1 cut(s) 224
Alw26I GTCTC 4 cut(s) 264, 375, 844, 887
AlwNI CAGNNNCTG 2 cut(s) 373, 566
Aor51HI AGCGCT 1 cut(s) 836
AoxI GGCC 2 cut(s) 237, 1107
ApeKI GCWGC 2 cut(s) 677, 1058
ApoI RAATTY 2 cut(s) 403, 416
Asp700I GAANNNNTTC 2 cut(s) 95, 116
AspLEI GCGC 2 cut(s) 277, 837
AspS9I GGNCC 4 cut(s) 204, 327, 741, 910
AsuC2I CCSGG 1 cut(s) 978
AsuHPI GGTGA 3 cut(s) 169, 256, 1064
AvaII GGWCC 4 cut(s) 204, 327, 741, 910
BanI GGYRCC 1 cut(s) 300
BarI GAAGNNNNNNTAC 2 cut(s) 566, 598
BbsI GAAGAC 2 cut(s) 144, 960
Bbv12I GWGCWC 1 cut(s) 224
BbvI GCAGC 2 cut(s) 664, 1045
BccI CCATC 4 cut(s) 17, 644, 686, 785
BcgI CGANNNNNNTGC 2 cut(s) 320, 354
BciT130I CCWGG 2 cut(s) 308, 545
BciVI GTATCC 1 cut(s) 762
BclI TGATCA 2 cut(s) 385, 1075
BcnI CCSGG 1 cut(s) 978
BcoDI GTCTC 4 cut(s) 264, 375, 844, 887
BfoI RGCGCY 1 cut(s) 838
BfrI CTTAAG 1 cut(s) 1094
BfuI GTATCC 1 cut(s) 762
BisI GCNGC 2 cut(s) 678, 1059
BlsI GCNGC 2 cut(s) 679, 1060
Bme1390I CCNGG 3 cut(s) 308, 545, 978
Bme18I GGWCC 4 cut(s) 204, 327, 741, 910
BmgT120I GGNCC 4 cut(s) 204, 327, 741, 910
BmiI GGNNCC 4 cut(s) 302, 328, 743, 912
BmrFI CCNGG 3 cut(s) 308, 545, 978
BmsI GCATC 3 cut(s) 724, 1045, 1075
BoxI GACNNNNGTC 1 cut(s) 173
BpiI GAAGAC 2 cut(s) 144, 960
BplI GAGNNNNNCTC 2 cut(s) 70, 102
BpuMI CCSGG 1 cut(s) 978
Bsa29I ATCGAT 1 cut(s) 29
BsaBI GATNNNNATC 2 cut(s) 1032, 1089
BsaHI GRCGYC 1 cut(s) 880
BsaJI CCNNGG 2 cut(s) 307, 977
BsaXI ACNNNNNCTCC 2 cut(s) 712, 742
Bsc4I CCNNNNNNNGG 3 cut(s) 919, 977, 978
Bse3DI GCAATG 1 cut(s) 1078
Bse8I GATNNNNATC 2 cut(s) 1032, 1089
BseBI CCWGG 2 cut(s) 308, 545
BseCI ATCGAT 1 cut(s) 29
BseDI CCNNGG 2 cut(s) 307, 977
BseGI GGATG 5 cut(s) 48, 418, 652, 701, 796
BseJI GATNNNNATC 2 cut(s) 1032, 1089
BseLI CCNNNNNNNGG 3 cut(s) 919, 977, 978
BseMI GCAATG 1 cut(s) 1078
BseMII CTCAG 1 cut(s) 239
BseRI GAGGAG 1 cut(s) 449
BseXI GCAGC 2 cut(s) 664, 1045
BseYI CCCAGC 1 cut(s) 253
Bsh1236I CGCG 3 cut(s) 275, 277, 290
BshFI GGCC 2 cut(s) 239, 1109
BshNI GGYRCC 1 cut(s) 300
BshVI ATCGAT 1 cut(s) 29
BsiHKAI GWGCWC 1 cut(s) 224
BsiSI CCGG 1 cut(s) 977
BslFI GGGAC 4 cut(s) 727, 896, 952, 1115
BslI CCNNNNNNNGG 3 cut(s) 919, 977, 978
BsmAI GTCTC 4 cut(s) 264, 375, 844, 887
BsmBI CGTCTC 2 cut(s) 264, 887
BsmFI GGGAC 4 cut(s) 727, 896, 952, 1115
BsnI GGCC 2 cut(s) 239, 1109
Bsp1286I GDGCHC 1 cut(s) 224
Bsp143I GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
BspACI CCGC 2 cut(s) 54, 180
BspANI GGCC 2 cut(s) 239, 1109
BspCNI CTCAG 1 cut(s) 240
BspDI ATCGAT 1 cut(s) 29
BspFNI CGCG 3 cut(s) 275, 277, 290
BspLI GGNNCC 4 cut(s) 302, 328, 743, 912
BspQI GCTCTTC 1 cut(s) 371
BspT107I GGYRCC 1 cut(s) 300
BspTI CTTAAG 1 cut(s) 1094
BsrDI GCAATG 1 cut(s) 1078
BssECI CCNNGG 2 cut(s) 307, 977
BssMI GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
BssNI GRCGYC 1 cut(s) 880
Bst2UI CCWGG 2 cut(s) 308, 545
Bst4CI ACNGT 1 cut(s) 1082
Bst6I CTCTTC 2 cut(s) 371, 603
BstACI GRCGYC 1 cut(s) 880
BstAFI CTTAAG 1 cut(s) 1094
BstAPI GCANNNNNTGC 1 cut(s) 219
BstDEI CTNAG 1 cut(s) 248
BstEII GGTNACC 1 cut(s) 262
BstF5I GGATG 5 cut(s) 48, 418, 652, 701, 796
BstFNI CGCG 3 cut(s) 275, 277, 290
BstH2I RGCGCY 1 cut(s) 838
BstHHI GCGC 2 cut(s) 277, 837
BstKTI GATC 6 cut(s) 33, 234, 294, 388, 1078, 1093
BstMAI GTCTC 4 cut(s) 264, 375, 844, 887
BstMBI GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
BstMWI GCNNNNNNNGC 2 cut(s) 188, 219
BstNI CCWGG 2 cut(s) 308, 545
BstPAI GACNNNNGTC 1 cut(s) 173
BstPI GGTNACC 1 cut(s) 262
BstSCI CCNGG 3 cut(s) 306, 543, 976
BstUI CGCG 3 cut(s) 275, 277, 290
BstV1I GCAGC 2 cut(s) 664, 1045
BstV2I GAAGAC 2 cut(s) 144, 960
BstXI CCANNNNNNTGG 1 cut(s) 609
Bsu15I ATCGAT 1 cut(s) 29
BsuI GTATCC 1 cut(s) 762
BsuRI GGCC 2 cut(s) 239, 1109
BsuTUI ATCGAT 1 cut(s) 29
BtsCI GGATG 5 cut(s) 48, 418, 652, 701, 796
BtsI GCAGTG 1 cut(s) 388
BtsIMutI CAGTG 3 cut(s) 388, 567, 1087
CaiI CAGNNNCTG 2 cut(s) 373, 566
CfoI GCGC 2 cut(s) 277, 837
Cfr13I GGNCC 4 cut(s) 204, 327, 741, 910
ClaI ATCGAT 1 cut(s) 29
CseI GACGC 2 cut(s) 281, 296
Csp6I GTAC 2 cut(s) 187, 583
CspCI CAANNNNNGTGG 2 cut(s) 293, 328
CviAII CATG 2 cut(s) 173, 659
CviQI GTAC 2 cut(s) 187, 583
DdeI CTNAG 1 cut(s) 248
DpnI GATC 6 cut(s) 32, 233, 293, 387, 1077, 1092
DpnII GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
DraI TTTAAA 1 cut(s) 1119
Eam1104I CTCTTC 2 cut(s) 371, 603
EarI CTCTTC 2 cut(s) 371, 603
Eco47I GGWCC 4 cut(s) 204, 327, 741, 910
Eco47III AGCGCT 1 cut(s) 836
Eco57I CTGAAG 2 cut(s) 301, 395
Eco91I GGTNACC 1 cut(s) 262
EcoO109I RGGNCCY 2 cut(s) 204, 910
EcoO65I GGTNACC 1 cut(s) 262
EcoRII CCWGG 2 cut(s) 306, 543
Esp3I CGTCTC 2 cut(s) 264, 887
FaeI CATG 2 cut(s) 176, 662
FalI AAGNNNNNCTT 2 cut(s) 582, 614
FaqI GGGAC 4 cut(s) 727, 896, 952, 1115
FatI CATG 2 cut(s) 172, 658
FauI CCCGC 1 cut(s) 61
FauNDI CATATG 1 cut(s) 990
FbaI TGATCA 2 cut(s) 385, 1075
Fnu4HI GCNGC 2 cut(s) 678, 1059
FokI GGATG 5 cut(s) 35, 425, 659, 708, 803
Fsp4HI GCNGC 2 cut(s) 678, 1059
GlaI GCGC 2 cut(s) 276, 836
GluI GCNGC 2 cut(s) 678, 1059
GsaI CCCAGC 1 cut(s) 257
HaeII RGCGCY 1 cut(s) 838
HaeIII GGCC 2 cut(s) 239, 1109
HapII CCGG 1 cut(s) 977
HgaI GACGC 2 cut(s) 281, 296
HhaI GCGC 2 cut(s) 277, 837
Hin1I GRCGYC 1 cut(s) 880
Hin1II CATG 2 cut(s) 176, 662
Hin6I GCGC 2 cut(s) 275, 835
HinP1I GCGC 2 cut(s) 275, 835
HincII GTYRAC 1 cut(s) 349
HindII GTYRAC 1 cut(s) 349
HindIII AAGCTT 2 cut(s) 393, 1149
HinfI GANTC 7 cut(s) 79, 440, 662, 723, 866, 943, 1033
HpaII CCGG 1 cut(s) 977
HphI GGTGA 3 cut(s) 169, 256, 1064
Hpy166II GTNNAC 2 cut(s) 349, 865
Hpy188I TCNGA 7 cut(s) 78, 90, 249, 331, 375, 568, 624
Hpy188III TCNNGA 3 cut(s) 389, 638, 814
Hpy8I GTNNAC 2 cut(s) 349, 865
HpyAV CCTTC 6 cut(s) 67, 526, 568, 607, 765, 901
HpyCH4III ACNGT 1 cut(s) 1082
HpyCH4IV ACGT 3 cut(s) 94, 115, 880
HpyCH4V TGCA 4 cut(s) 213, 658, 704, 1103
HpyF10VI GCNNNNNNNGC 2 cut(s) 188, 219
HpyF3I CTNAG 1 cut(s) 248
HpySE526I ACGT 3 cut(s) 94, 115, 880
Hsp92I GRCGYC 1 cut(s) 880
Hsp92II CATG 2 cut(s) 176, 662
HspAI GCGC 2 cut(s) 275, 835
Ksp22I TGATCA 2 cut(s) 385, 1075
Kzo9I GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
LguI GCTCTTC 1 cut(s) 371
LmnI GCTCC 2 cut(s) 137, 777
Lsp1109I GCAGC 2 cut(s) 664, 1045
LweI GCATC 3 cut(s) 724, 1045, 1075
MaeII ACGT 3 cut(s) 94, 115, 880
MaeIII GTNAC 2 cut(s) 175, 262
MalI GATC 6 cut(s) 32, 233, 293, 387, 1077, 1092
MboI GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
MfeI CAATTG 1 cut(s) 15
MhlI GDGCHC 1 cut(s) 224
MluCI AATT 7 cut(s) 15, 72, 403, 416, 672, 873, 915
MlyI GAGTC 5 cut(s) 88, 671, 732, 860, 952
MmeI TCCRAC 2 cut(s) 222, 975
MnlI CCTC 8 cut(s) 217, 229, 243, 427, 430, 781, 1099, 1129
MroXI GAANNNNTTC 2 cut(s) 95, 116
MseI TTAA 4 cut(s) 357, 897, 1095, 1118
MslI CAYNNNNRTG 3 cut(s) 607, 1028, 1083
MspCI CTTAAG 1 cut(s) 1094
MspI CCGG 1 cut(s) 977
MspR9I CCNGG 3 cut(s) 308, 545, 978
MunI CAATTG 1 cut(s) 15
MvaI CCWGG 2 cut(s) 308, 545
MvnI CGCG 3 cut(s) 275, 277, 290
MwoI GCNNNNNNNGC 2 cut(s) 188, 219
NciI CCSGG 1 cut(s) 978
NdeI CATATG 1 cut(s) 990
NdeII GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
NlaIII CATG 2 cut(s) 176, 662
NlaIV GGNNCC 4 cut(s) 302, 328, 743, 912
NmeAIII GCCGAG 1 cut(s) 208
NmuCI GTSAC 2 cut(s) 175, 262
PciSI GCTCTTC 1 cut(s) 371
PdmI GAANNNNTTC 2 cut(s) 95, 116
PfeI GAWTC 2 cut(s) 440, 1033
PkrI GCNGC 2 cut(s) 679, 1060
PleI GAGTC 5 cut(s) 87, 670, 731, 860, 951
PpsI GAGTC 5 cut(s) 87, 670, 731, 860, 951
PpuMI RGGWCCY 2 cut(s) 204, 910
PshAI GACNNNNGTC 1 cut(s) 173
Psp1406I AACGTT 2 cut(s) 94, 115
Psp5II RGGWCCY 2 cut(s) 204, 910
Psp6I CCWGG 2 cut(s) 306, 543
PspEI GGTNACC 1 cut(s) 262
PspFI CCCAGC 1 cut(s) 253
PspGI CCWGG 2 cut(s) 306, 543
PspN4I GGNNCC 4 cut(s) 302, 328, 743, 912
PspPI GGNCC 4 cut(s) 204, 327, 741, 910
PspPPI RGGWCCY 2 cut(s) 204, 910
PstNI CAGNNNCTG 2 cut(s) 373, 566
RsaI GTAC 2 cut(s) 188, 584
RsaNI GTAC 2 cut(s) 187, 583
RseI CAYNNNNRTG 3 cut(s) 607, 1028, 1083
SapI GCTCTTC 1 cut(s) 371
SaqAI TTAA 4 cut(s) 357, 897, 1095, 1118
SatI GCNGC 2 cut(s) 678, 1059
Sau3AI GATC 6 cut(s) 30, 231, 291, 385, 1075, 1090
Sau96I GGNCC 4 cut(s) 204, 327, 741, 910
SchI GAGTC 5 cut(s) 88, 671, 732, 860, 952
ScrFI CCNGG 3 cut(s) 308, 545, 978
SduI GDGCHC 1 cut(s) 224
SfaNI GCATC 3 cut(s) 724, 1045, 1075
SinI GGWCC 4 cut(s) 204, 327, 741, 910
SmiMI CAYNNNNRTG 3 cut(s) 607, 1028, 1083
SmlI CTYRAG 1 cut(s) 1094
SmoI CTYRAG 1 cut(s) 1094
Sse9I AATT 7 cut(s) 15, 72, 403, 416, 672, 873, 915
SsiI CCGC 2 cut(s) 54, 180
StyD4I CCNGG 3 cut(s) 306, 543, 976
TaaI ACNGT 1 cut(s) 1082
TaiI ACGT 3 cut(s) 97, 118, 883
TaqI TCGA 4 cut(s) 29, 167, 224, 234
TasI AATT 7 cut(s) 15, 72, 403, 416, 672, 873, 915
TatI WGTACW 1 cut(s) 582
TfiI GAWTC 2 cut(s) 440, 1033
Tru1I TTAA 4 cut(s) 357, 897, 1095, 1118
Tru9I TTAA 4 cut(s) 357, 897, 1095, 1118
TscAI CASTG 3 cut(s) 388, 567, 1087
TseFI GTSAC 2 cut(s) 175, 262
TseI GCWGC 2 cut(s) 677, 1058
Tsp45I GTSAC 2 cut(s) 175, 262
TspDTI ATGAA 7 cut(s) 429, 504, 510, 516, 834, 916, 1046
TspGWI ACGGA 1 cut(s) 790
TspRI CASTG 3 cut(s) 388, 567, 1087
Vha464I CTTAAG 1 cut(s) 1094
VpaK11BI GGWCC 4 cut(s) 204, 327, 741, 910
XapI RAATTY 2 cut(s) 403, 416
XmnI GAANNNNTTC 2 cut(s) 95, 116
ZraI GACGTC 1 cut(s) 881
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.