Rh3CG245600

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0000269
Physical Location & Seq
Reverse (-)
23652023 .. 23653980
1958 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG245600.1

Sequence Viewer

Length: 1467 bp
ATGAATCCCCCAAAACTAAACCATGATTTTCGAGTTGAGATATCTCAAAAATGGAAAGAGCTTCCAGCTGAAGAGAAGGAACAGTATGTAGTGACTGATCGATGTGGTCAGTCATCAGTTTCTGAGGAAGAGTTGCTTGAGTTGGTTCGGATTGATACCTGTTGCTCTCCAGACCGCTTCAGGTCTTTGGTTGCAGACTTTAGCGATGAGAAAAAGGCAGCCTGTTCAACAATTGGATTTGATGTGTTGTTGAAGATGTTAGGAAGGAAAATTCACCACTCTATGTTGCGTGTCCTTGTGGACTCCGTAGACCCCAATGCATGTACTATAACTATGCATGGAAAGAAGATTGAAATGGATGCAAGTGACTTTGAAAATGTGATGGGGTTGAAGAATGCTGGGTCCGAGGTCGACTTTAAAGGTTCCACTAATGATCACCCTGAGTTGATGGCGATAATAAACTCCTTGTGTGGGAAGGATAAGAAGATCAGTTTAAGGGACGTGCAGAACTACCTGAAGGATACAGAAGAAGTTGACAACAAGTTCAAGCGCCTGTTTGTGTTGTTCACAATGAGCACCATCCTTAGCCCATCTGCCTCACTGACAATACCAAAGAAGTGGCTGCTGGCCCTGAAGGACACTCGCCTGATTAGCTCTTTAAACTGGGCTGATTACTCATTCAAATGTTTGATGGAGGCCATCGTCAGTTTCAAAAAAGACTCCCAGTCCTATTATAGCGGTTGTGTCCTGTTTATGCAATTGTTCTATTTTGATTGTGTTTCACATGGGAAGACCATTGTGGACAAGTCCTTGTACCCAGTTGAAGCTTGGGGGGACTATGAAACGAGCAAACTGCTCAAATGGGTGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTCTTATGGCAAAGGTTGGCGATCGTGTTGGTAGTGGAGATCAGGCCAAAGCATATGGGGTGATTAAGAAAGAAATGTCTGACTTGGCTGCTAAAGTGAATGGGTTGGAAAATAATATGTGCAATCTGAGAGATGATATGATGGGAAAGATGGACAAAGTCTTGAGTATGCTGAACACTCTGACTGCACAAAATGTGAATGTCAATCAGAACCTTCAAACTGATGGCTTAGCAAAAAAAGTAAGCCCCAAGAAAGTTTCAAAAAAGAAAGCTGGAGAGCAACAGGAGGTGTTACAGGTACATGGGGAAGACTTGCAACCAAAAAAGAAGACCTCCTTGATTTGCCTATCTGACTCAACATCTGTAGTCAGCCCACTGAAAAGTATGAAGAAAGTTGATGCCAACCCCACGACCAAGAGTAACATAGAGAAGATTAGTAACTTCAAAGTCAAGGGAGATCGGGAGGAGGCTGACAAAGGAGTGCTCAGGTTTGTTTATGATGTGTCAGCTGAAGAGAAGGAGACCATTGTGGATAGTGAAAATTTCTTCACTAGTCGAAAAGCAGTTTGA
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
HMG_box

Protein Analysis

488

Amino Acids

54.78

Weight (kDa)

7.47

Isoelectric Point (pI)

32.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1985 PF09331 106 - 232 5.3e-07 Domain of unknown function (DUF1985)
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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Orthologous Genes (Group: OG0000269)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29141 FvH4_1g29142 FvH4_2g04882 FvH4_2g04883 FvH4_2g07612 FvH4_3g26550 FvH4_3g26551 FvH4_3g31781 FvH4_3g31810 FvH4_3g31812 FvH4_4g08580 FvH4_4g08581 FvH4_4g08649 FvH4_4g08910 FvH4_4g10124 FvH4_4g10125 FvH4_4g28760 FvH4_5g16042 FvH4_5g24070 FvH4_5g30680 FvH4_5g37871 FvH4_5g37872 FvH4_7g03531 FvH4_7g12891 FvH4_7g12892 FvH4_7g12893
rosa_chinensis RchiOBHm_Chr7g0204351
rosa_laevigata RLG00000001882 RLG00000002339 RLG00000004189 RLG00000009211 RLG00000009212 RLG00000013650 RLG00000019919 RLG00000019920 RLG00000019921 RLG00000020177 RLG00000020178 RLG00000023368 RLG00000028208 RLG00000029086 RLG00000029688 RLG00000032551 RLG00000034335 RLG00000034807
rosa_multiflora Rmu_sc0000308.1_g000017 Rmu_sc0000308.1_g000018 Rmu_sc0003422.1_g000004 Rmu_sc0003776.1_g000026 Rmu_sc0005399.1_g000010 Rmu_sc0005399.1_g000012 Rmu_sc0009924.1_g000004
rosa_roxburghii Rroxscaffold_1G00053720 Rroxscaffold_1G00053730 Rroxscaffold_1G00054020 Rroxscaffold_2G00133470 Rroxscaffold_2G00133480 Rroxscaffold_3G00229920 Rroxscaffold_3G00229930 Rroxscaffold_3G00229940 Rroxscaffold_3G00245890 Rroxscaffold_3G00245900 Rroxscaffold_4G00317860 Rroxscaffold_5G00346620 Rroxscaffold_6G00396640 Rroxscaffold_6G00396930 Rroxscaffold_6G00396940 Rroxscaffold_6G00401510 Rroxscaffold_7G00201920 Rroxscaffold_7G00201930 Rroxscaffold_7G00201940
rosa_rugosa Rorug01G0116700 Rorug01G0116700 Rorug04G0072900 Rorug04G0073000 Rorug04G0112000 Rorug07G0258800
rosa_samantha Rh1AG123800 Rh1AG297000 Rh1DG057400 Rh1DG057500 Rh1DG129000 Rh2BG298000 Rh2BG471200 Rh2BG471300 Rh2BG471400 Rh2BG621400 Rh3CG245500 Rh3CG245600 Rh4DG157200 Rh4DG157300 Rh4DG157400 Rh4DG157500 Rh4DG157600 Rh4DG157700 Rh5DG402200 Rh6AG050900 Rh6AG051000 Rh6AG088400 Rh6AG088500 Rh6AG088600 Rh6AG088700 Rh6AG139800 Rh6AG139900 Rh6AG140000 Rh6CG077200 Rh6CG077300 Rh6CG077400 Rh6CG077500 Rh7CG225300 Rh7CG225400 Rh7CG225500 Rh7CG225600 Rh7CG267500 Rh7CG267600 Rh7CG267800 Rh7CG267900 Rh7CG338700 Rh7CG338800 Rh7CG338900 Rh7CG430900 Rh7CG431000 Rh7CG431100 Rh7DG219700 Rh7DG219800 Rh7DG219900 Rh7DG220000 Rh7DG257600 Rh7DG271500 Rh7DG367700 Rh7DG408600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 309, 411
AciI CCGC 2 cut(s) 175, 738
AcsI RAATTY 2 cut(s) 270, 1438
AcuI CTGAAG 5 cut(s) 90, 163, 536, 653, 1428
AfaI GTAC 3 cut(s) 325, 815, 1197
AfiI CCNNNNNNNGG 1 cut(s) 471
AhdI GACNNNNNGTC 1 cut(s) 724
AhlI ACTAGT 1 cut(s) 1448
AjiI CACGTC 1 cut(s) 502
AluBI AGCT 6 cut(s) 61, 68, 654, 827, 1169, 1406
AluI AGCT 6 cut(s) 61, 68, 654, 827, 1169, 1406
Alw21I GWGCWC 2 cut(s) 578, 1383
Alw26I GTCTC 1 cut(s) 1412
AlwNI CAGNNNCTG 1 cut(s) 122
AoxI GGCC 3 cut(s) 627, 696, 942
ApeKI GCWGC 3 cut(s) 218, 622, 986
ApoI RAATTY 2 cut(s) 270, 1438
Asp700I GAANNNNTTC 1 cut(s) 897
AspLEI GCGC 1 cut(s) 552
AspS9I GGNCC 2 cut(s) 402, 628
AsuHPI GGTGA 4 cut(s) 266, 428, 877, 970
AvaII GGWCC 1 cut(s) 402
BbsI GAAGAC 3 cut(s) 797, 1212, 1232
Bbv12I GWGCWC 2 cut(s) 578, 1383
BbvI GCAGC 3 cut(s) 230, 609, 973
BccI CCATC 9 cut(s) 376, 442, 587, 598, 685, 707, 1033, 1042, 1115
BcgI CGANNNNNNTGC 2 cut(s) 835, 869
BciVI GTATCC 1 cut(s) 514
BclI TGATCA 1 cut(s) 433
BcoDI GTCTC 1 cut(s) 1412
BcuI ACTAGT 1 cut(s) 1448
BfaI CTAG 1 cut(s) 1449
BfmI CTRYAG 1 cut(s) 1260
BfoI RGCGCY 1 cut(s) 553
BfuI GTATCC 1 cut(s) 514
BisI GCNGC 3 cut(s) 219, 623, 987
BlpI GCTNAGC 1 cut(s) 1126
BlsI GCNGC 3 cut(s) 220, 624, 988
Bme18I GGWCC 1 cut(s) 402
BmeRI GACNNNNNGTC 1 cut(s) 724
BmgBI CACGTC 1 cut(s) 502
BmgT120I GGNCC 2 cut(s) 402, 628
BmiI GGNNCC 2 cut(s) 403, 424
BmrI ACTGGG 3 cut(s) 673, 718, 812
BmsI GCATC 2 cut(s) 349, 1285
BmuI ACTGGG 3 cut(s) 673, 718, 812
BpiI GAAGAC 3 cut(s) 797, 1212, 1232
BpmI CTGGAG 2 cut(s) 153, 1191
Bpu10I CCTNAGC 2 cut(s) 584, 1382
Bpu1102I GCTNAGC 1 cut(s) 1126
BpuEI CTTGAG 2 cut(s) 158, 1081
Bsa29I ATCGAT 1 cut(s) 100
BsaI GGTCTC 1 cut(s) 1412
BsaJI CCNNGG 1 cut(s) 405
Bsc4I CCNNNNNNNGG 1 cut(s) 471
Bse1I ACTGG 3 cut(s) 668, 724, 818
BseCI ATCGAT 1 cut(s) 100
BseDI CCNNGG 1 cut(s) 405
BseGI GGATG 3 cut(s) 364, 579, 895
BseLI CCNNNNNNNGG 1 cut(s) 471
BseMII CTCAG 4 cut(s) 114, 432, 1016, 1396
BseNI ACTGG 3 cut(s) 668, 724, 818
BseRI GAGGAG 1 cut(s) 1376
BseXI GCAGC 3 cut(s) 230, 609, 973
BseYI CCCAGC 1 cut(s) 398
BsgI GTGCAG 2 cut(s) 524, 1068
Bsh1285I CGRYCG 1 cut(s) 922
BshFI GGCC 3 cut(s) 629, 698, 944
BshVI ATCGAT 1 cut(s) 100
BsiEI CGRYCG 1 cut(s) 922
BsiHKAI GWGCWC 2 cut(s) 578, 1383
BslFI GGGAC 2 cut(s) 512, 848
BslI CCNNNNNNNGG 1 cut(s) 471
BsmAI GTCTC 1 cut(s) 1412
BsmFI GGGAC 2 cut(s) 512, 848
BsmI GAATGC 1 cut(s) 400
BsnI GGCC 3 cut(s) 629, 698, 944
Bso31I GGTCTC 1 cut(s) 1412
Bsp1286I GDGCHC 2 cut(s) 578, 1383
Bsp143I GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
Bsp1720I GCTNAGC 1 cut(s) 1126
BspACI CCGC 2 cut(s) 175, 738
BspANI GGCC 3 cut(s) 629, 698, 944
BspCNI CTCAG 4 cut(s) 115, 433, 1017, 1395
BspDI ATCGAT 1 cut(s) 100
BspLI GGNNCC 2 cut(s) 403, 424
BspTNI GGTCTC 1 cut(s) 1412
BsrI ACTGG 3 cut(s) 668, 724, 818
BssECI CCNNGG 1 cut(s) 405
BssMI GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
Bst4CI ACNGT 1 cut(s) 84
Bst6I CTCTTC 3 cut(s) 66, 123, 1404
BstC8I GCNNGC 1 cut(s) 627
BstDEI CTNAG 6 cut(s) 123, 441, 584, 1025, 1126, 1382
BstF5I GGATG 3 cut(s) 364, 579, 895
BstH2I RGCGCY 1 cut(s) 553
BstHHI GCGC 1 cut(s) 552
BstKTI GATC 6 cut(s) 100, 436, 489, 922, 940, 1357
BstMAI GTCTC 1 cut(s) 1412
BstMBI GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
BstMCI CGRYCG 1 cut(s) 922
BstMWI GCNNNNNNNGC 1 cut(s) 651
BstNSI RCATGY 1 cut(s) 324
BstSFI CTRYAG 1 cut(s) 1260
BstV1I GCAGC 3 cut(s) 230, 609, 973
BstV2I GAAGAC 3 cut(s) 797, 1212, 1232
BstXI CCANNNNNNTGG 1 cut(s) 618
Bsu15I ATCGAT 1 cut(s) 100
BsuI GTATCC 1 cut(s) 514
BsuRI GGCC 3 cut(s) 629, 698, 944
BsuTUI ATCGAT 1 cut(s) 100
BtgZI GCGATG 1 cut(s) 219
BtrI CACGTC 1 cut(s) 502
BtsCI GGATG 3 cut(s) 364, 579, 895
BtsIMutI CAGTG 2 cut(s) 599, 1271
Cac8I GCNNGC 1 cut(s) 627
CaiI CAGNNNCTG 1 cut(s) 122
CfoI GCGC 1 cut(s) 552
Cfr13I GGNCC 2 cut(s) 402, 628
ClaI ATCGAT 1 cut(s) 100
Csp6I GTAC 3 cut(s) 324, 814, 1196
CspCI CAANNNNNGTGG 2 cut(s) 859, 894
CviAII CATG 5 cut(s) 23, 321, 338, 785, 1199
CviQI GTAC 3 cut(s) 324, 814, 1196
DdeI CTNAG 6 cut(s) 123, 441, 584, 1025, 1126, 1382
DpnI GATC 6 cut(s) 99, 435, 488, 921, 939, 1356
DpnII GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
DraI TTTAAA 2 cut(s) 418, 660
DriI GACNNNNNGTC 1 cut(s) 724
Eam1104I CTCTTC 3 cut(s) 66, 123, 1404
Eam1105I GACNNNNNGTC 1 cut(s) 724
EarI CTCTTC 3 cut(s) 66, 123, 1404
Eco31I GGTCTC 1 cut(s) 1412
Eco32I GATATC 1 cut(s) 42
Eco47I GGWCC 1 cut(s) 402
Eco57I CTGAAG 5 cut(s) 90, 163, 536, 653, 1428
EcoRV GATATC 1 cut(s) 42
EcoT22I ATGCAT 2 cut(s) 322, 339
FaeI CATG 5 cut(s) 26, 324, 341, 788, 1202
FalI AAGNNNNNCTT 4 cut(s) 120, 152, 1217, 1249
FaqI GGGAC 2 cut(s) 512, 848
FatI CATG 5 cut(s) 22, 320, 337, 784, 1198
FauNDI CATATG 1 cut(s) 952
FbaI TGATCA 1 cut(s) 433
FblI GTMKAC 2 cut(s) 309, 411
Fnu4HI GCNGC 3 cut(s) 219, 623, 987
FokI GGATG 3 cut(s) 371, 566, 902
Fsp4HI GCNGC 3 cut(s) 219, 623, 987
FspBI CTAG 1 cut(s) 1449
GlaI GCGC 1 cut(s) 551
GluI GCNGC 3 cut(s) 219, 623, 987
GsaI CCCAGC 1 cut(s) 402
GsuI CTGGAG 2 cut(s) 153, 1191
HaeII RGCGCY 1 cut(s) 553
HaeIII GGCC 3 cut(s) 629, 698, 944
HhaI GCGC 1 cut(s) 552
Hin1II CATG 5 cut(s) 26, 324, 341, 788, 1202
Hin6I GCGC 1 cut(s) 550
HinP1I GCGC 1 cut(s) 550
HincII GTYRAC 2 cut(s) 412, 535
HindII GTYRAC 2 cut(s) 412, 535
HindIII AAGCTT 1 cut(s) 825
HinfI GANTC 4 cut(s) 4, 302, 719, 1250
HphI GGTGA 4 cut(s) 266, 428, 877, 970
Hpy166II GTNNAC 7 cut(s) 301, 310, 412, 535, 567, 802, 868
Hpy188I TCNGA 8 cut(s) 124, 150, 406, 979, 1026, 1080, 1107, 1249
Hpy188III TCNNGA 3 cut(s) 170, 1060, 1358
Hpy8I GTNNAC 7 cut(s) 301, 310, 412, 535, 567, 802, 868
HpyAV CCTTC 7 cut(s) 70, 258, 469, 511, 628, 1121, 1408
HpyCH4III ACNGT 1 cut(s) 84
HpyCH4IV ACGT 1 cut(s) 501
HpyCH4V TGCA 9 cut(s) 194, 320, 337, 362, 505, 757, 1020, 1085, 1213
HpyF10VI GCNNNNNNNGC 1 cut(s) 651
HpyF3I CTNAG 6 cut(s) 123, 441, 584, 1025, 1126, 1382
HpySE526I ACGT 1 cut(s) 501
Hsp92II CATG 5 cut(s) 26, 324, 341, 788, 1202
HspAI GCGC 1 cut(s) 550
Ksp22I TGATCA 1 cut(s) 433
Kzo9I GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
Lsp1109I GCAGC 3 cut(s) 230, 609, 973
LweI GCATC 2 cut(s) 349, 1285
MaeI CTAG 1 cut(s) 1449
MaeII ACGT 1 cut(s) 501
MaeIII GTNAC 5 cut(s) 91, 365, 1188, 1316, 1334
MalI GATC 6 cut(s) 99, 435, 488, 921, 939, 1356
MboI GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
MfeI CAATTG 2 cut(s) 231, 758
MhlI GDGCHC 2 cut(s) 578, 1383
MluCI AATT 4 cut(s) 231, 270, 758, 1438
MlyI GAGTC 3 cut(s) 296, 713, 1244
MmeI TCCRAC 1 cut(s) 984
MnlI CCTC 8 cut(s) 118, 400, 607, 688, 1177, 1240, 1354, 1357
Mph1103I ATGCAT 2 cut(s) 322, 339
MroXI GAANNNNTTC 1 cut(s) 897
MseI TTAA 4 cut(s) 417, 494, 659, 963
MslI CAYNNNNRTG 1 cut(s) 682
MspA1I CMGCKG 2 cut(s) 68, 1406
MunI CAATTG 2 cut(s) 231, 758
Mva1269I GAATGC 1 cut(s) 400
MwoI GCNNNNNNNGC 1 cut(s) 651
NdeI CATATG 1 cut(s) 952
NdeII GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
NlaIII CATG 5 cut(s) 26, 324, 341, 788, 1202
NlaIV GGNNCC 2 cut(s) 403, 424
NmuCI GTSAC 2 cut(s) 91, 365
NsiI ATGCAT 2 cut(s) 322, 339
NspI RCATGY 1 cut(s) 324
PctI GAATGC 1 cut(s) 400
PdmI GAANNNNTTC 1 cut(s) 897
PfeI GAWTC 1 cut(s) 4
PflFI GACNNNGTC 1 cut(s) 1055
PkrI GCNGC 3 cut(s) 220, 624, 988
Ple19I CGATCG 1 cut(s) 922
PleI GAGTC 3 cut(s) 296, 713, 1244
PpsI GAGTC 3 cut(s) 296, 713, 1244
PspFI CCCAGC 1 cut(s) 398
PspN4I GGNNCC 2 cut(s) 403, 424
PspPI GGNCC 2 cut(s) 402, 628
PstNI CAGNNNCTG 1 cut(s) 122
PsyI GACNNNGTC 1 cut(s) 1055
PvuI CGATCG 1 cut(s) 922
PvuII CAGCTG 2 cut(s) 68, 1406
RsaI GTAC 3 cut(s) 325, 815, 1197
RsaNI GTAC 3 cut(s) 324, 814, 1196
RseI CAYNNNNRTG 1 cut(s) 682
SalI GTCGAC 1 cut(s) 410
SaqAI TTAA 4 cut(s) 417, 494, 659, 963
SatI GCNGC 3 cut(s) 219, 623, 987
Sau3AI GATC 6 cut(s) 97, 433, 486, 919, 937, 1354
Sau96I GGNCC 2 cut(s) 402, 628
SchI GAGTC 3 cut(s) 296, 713, 1244
SduI GDGCHC 2 cut(s) 578, 1383
SfaNI GCATC 2 cut(s) 349, 1285
SfcI CTRYAG 1 cut(s) 1260
SinI GGWCC 1 cut(s) 402
SmiMI CAYNNNNRTG 1 cut(s) 682
SmlI CTYRAG 2 cut(s) 137, 1060
SmoI CTYRAG 2 cut(s) 137, 1060
SpeI ACTAGT 1 cut(s) 1448
Sse9I AATT 4 cut(s) 231, 270, 758, 1438
SsiI CCGC 2 cut(s) 175, 738
SspMI CTAG 1 cut(s) 1449
TaaI ACNGT 1 cut(s) 84
TaiI ACGT 1 cut(s) 504
TaqI TCGA 4 cut(s) 31, 100, 411, 1453
TasI AATT 4 cut(s) 231, 270, 758, 1438
TatI WGTACW 1 cut(s) 323
TfiI GAWTC 1 cut(s) 4
Tru1I TTAA 4 cut(s) 417, 494, 659, 963
Tru9I TTAA 4 cut(s) 417, 494, 659, 963
TscAI CASTG 2 cut(s) 606, 1278
TseFI GTSAC 2 cut(s) 91, 365
TseI GCWGC 3 cut(s) 218, 622, 986
Tsp45I GTSAC 2 cut(s) 91, 365
TspDTI ATGAA 4 cut(s) 17, 855, 906, 1298
TspGWI ACGGA 1 cut(s) 295
TspRI CASTG 2 cut(s) 606, 1278
Tth111I GACNNNGTC 1 cut(s) 1055
VpaK11BI GGWCC 1 cut(s) 402
XapI RAATTY 2 cut(s) 270, 1438
XceI RCATGY 1 cut(s) 324
XcmI CCANNNNNNNNNTGG 1 cut(s) 825
XmiI GTMKAC 2 cut(s) 309, 411
XmnI GAANNNNTTC 1 cut(s) 897
XspI CTAG 1 cut(s) 1449
Zsp2I ATGCAT 2 cut(s) 322, 339
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.