Rh5DG262100

Pfam:DUF3633

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0016790
Physical Location & Seq
Reverse (-)
31439940 .. 31441515
1576 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG262100.1

Sequence Viewer

Length: 1218 bp
ATGGATTGTTCTCTATATAAGCACTCAAATGAGTTTGTTATTTACGTTTCCAATAGTCAACCTTCAAAGCCTTTAGCATTACCCCAAGTGTGTGGGAGGGTGGGAAATAGAAATAGGAGGCTAGTCAGAGCGAGGATCAATCTTATCGTGAAATTGTACCGCCGTTGTCAATACTTTGAGGATACTATGTATGAAGATCAAGATATCGACAATATAGAGCTTGCCATGCAGCTAATTTCCGTTTCAGATCATCAATATGAAAAAGGGCAAAGTGATGCAAATAAGGAAGTTGCTATATCTTCAAGACAACCAATGTTGGTTTGCGATGTTTGTACTAATACAATTATCGAGAGCTTGCATCATCCCACTTATTTCCCAGATGGAGCTCCAGTTTGCTGCGACATAATATGGAAACAAACAATTTGTCCCAAACATCTAGAGGATAGAACTCCAATATGCTGTGGCTGCATGAGGTTAAGGACAAGTGATGTAACATATATAAATCTCGGTGAAGGTCGGGAAATATGCCCAGATTGTTATTCTACCGCAATCGTCGATATCCGACAATGTGAACCTCTCATGATCCATAAATGTCACGAATTTTTCCGTACACTCAACCTGGACCTTCCGGACGACGTTCGTGTCTTCTTGGTCGACAAGAAAGAGATGGATAGACTAAACTGCGAGCAAGAACCCACCCCTTTCGGGTTGCGTTTCAAGGCAGATATGGGAACCATCACCGGCGTTACAAGTTGTTCGCGGAAAGGGGATAGCGTTGTAGTGGAGCGACAGTTTCATGGTGATTATAAAACCGGCATAGCAATTTTGTTCGGTTTGCCCAAGATTATGACGCAGGCAATCTTGGCTCATGAGATGATGCATGTATGGTTTCGATCGAAAGGTATTATATTCGGGGAACTGGAAAAGAAACTGGAAGAAGGAATGTGTCAAGTAATAGGTTGGAAATGGTTGGATTGGCTGGACAGTGAAATTACTTCATCATCATCAGCAACTACTAGTCATGAGCAGGCTCAGTTTCTGAGAAAATTAGTACAAACATACAAGTTTGTGGTGGAAAAGCATGACTCTGATGAATATGGCCAAGGATTTAGAGAGGTCCAACGGGCAGTTGCAAGATTTGGCCTTGAAACTACAATTAATCATATGATTACAACTTACAAGGAAAAAGCTTCCAGAAGAATTCCAGTCACACTCTAG
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
DA1-like

Protein Analysis

405

Amino Acids

46.62

Weight (kDa)

6.37

Isoelectric Point (pI)

39.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DA1-like PF12315 217 - 391 5.1e-35 Protein DA1
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: OG0016790)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g21570
prunus_persica Prupe.8G103200_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0037021
rosa_laevigata RLG00000024635 RLG00000033744
rosa_multiflora Rmu_co8219504.1_g000001 Rmu_sc0008296.1_g000003 Rmu_ssc0000062.1_g000041
rosa_roxburghii Rroxscaffold_1G00043920
rosa_samantha Rh5AG251900 Rh5BG253500 Rh5CG286200 Rh5DG262100
rosa_wichuraiana Rw5G023210

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 807
AasI GACNNNNNNGTC 1 cut(s) 641
AccI GTMKAC 1 cut(s) 654
AccII CGCG 1 cut(s) 760
AccIII TCCGGA 1 cut(s) 628
AciI CCGC 3 cut(s) 160, 546, 760
AclWI GGATC 2 cut(s) 143, 577
AcoI YGGCCR 1 cut(s) 1099
AcsI RAATTY 2 cut(s) 599, 1200
AfaI GTAC 4 cut(s) 158, 334, 610, 1053
AfiI CCNNNNNNNGG 1 cut(s) 705
AgsI TTSAA 4 cut(s) 66, 303, 718, 1148
AhlI ACTAGT 1 cut(s) 1016
AjnI CCWGG 1 cut(s) 618
AluBI AGCT 5 cut(s) 220, 232, 354, 386, 1190
AluI AGCT 5 cut(s) 220, 232, 354, 386, 1190
Alw21I GWGCWC 1 cut(s) 388
AlwI GGATC 2 cut(s) 143, 577
AlwNI CAGNNNCTG 1 cut(s) 1039
Aor13HI TCCGGA 1 cut(s) 628
AoxI GGCC 2 cut(s) 1099, 1141
ApeKI GCWGC 3 cut(s) 229, 396, 465
ApoI RAATTY 2 cut(s) 599, 1200
ArsI GACNNNNNNTTYG 2 cut(s) 409, 441
AseI ATTAAT 1 cut(s) 1158
AspS9I GGNCC 2 cut(s) 622, 1117
AsuHPI GGTGA 3 cut(s) 521, 730, 812
AvaII GGWCC 2 cut(s) 622, 1117
BalI TGGCCA 1 cut(s) 1101
BanII GRGCYC 1 cut(s) 388
BbsI GAAGAC 1 cut(s) 637
Bbv12I GWGCWC 1 cut(s) 388
BbvI GCAGC 3 cut(s) 241, 383, 452
BccI CCATC 3 cut(s) 374, 661, 743
BceAI ACGGC 1 cut(s) 147
BciT130I CCWGG 1 cut(s) 620
BciVI GTATCC 1 cut(s) 175
BcuI ACTAGT 1 cut(s) 1016
BfaI CTAG 4 cut(s) 122, 437, 1017, 1216
BfuI GTATCC 1 cut(s) 175
BisI GCNGC 3 cut(s) 230, 397, 466
BlsI GCNGC 3 cut(s) 231, 398, 467
Bme1390I CCNGG 1 cut(s) 620
Bme18I GGWCC 2 cut(s) 622, 1117
BmgT120I GGNCC 2 cut(s) 622, 1117
BmiI GGNNCC 1 cut(s) 733
BmrFI CCNGG 1 cut(s) 620
BmsI GCATC 3 cut(s) 265, 367, 867
BpiI GAAGAC 1 cut(s) 637
BpmI CTGGAG 1 cut(s) 372
BsaJI CCNNGG 1 cut(s) 1102
BsaWI WCCGGW 1 cut(s) 628
BsaXI ACNNNNNCTCC 4 cut(s) 375, 405, 776, 806
Bsc4I CCNNNNNNNGG 1 cut(s) 705
Bse118I RCCGGY 2 cut(s) 740, 812
Bse1I ACTGG 4 cut(s) 389, 924, 936, 1205
BseAI TCCGGA 1 cut(s) 628
BseBI CCWGG 1 cut(s) 620
BseDI CCNNGG 1 cut(s) 1102
BseGI GGATG 1 cut(s) 361
BseLI CCNNNNNNNGG 1 cut(s) 705
BseMII CTCAG 2 cut(s) 1031, 1046
BseNI ACTGG 4 cut(s) 389, 924, 936, 1205
BseXI GCAGC 3 cut(s) 241, 383, 452
Bsh1236I CGCG 1 cut(s) 760
Bsh1285I CGRYCG 1 cut(s) 896
BshFI GGCC 2 cut(s) 1101, 1143
BsiEI CGRYCG 1 cut(s) 896
BsiHKAI GWGCWC 1 cut(s) 388
BsiSI CCGG 3 cut(s) 629, 741, 813
BslFI GGGAC 1 cut(s) 411
BslI CCNNNNNNNGG 1 cut(s) 705
BsmFI GGGAC 1 cut(s) 411
BsnI GGCC 2 cut(s) 1101, 1143
Bsp1286I GDGCHC 1 cut(s) 388
Bsp13I TCCGGA 1 cut(s) 628
Bsp143I GATC 5 cut(s) 135, 196, 247, 582, 893
BspACI CCGC 3 cut(s) 160, 546, 760
BspANI GGCC 2 cut(s) 1101, 1143
BspCNI CTCAG 2 cut(s) 1032, 1045
BspEI TCCGGA 1 cut(s) 628
BspFNI CGCG 1 cut(s) 760
BspHI TCATGA 3 cut(s) 579, 868, 1021
BspLI GGNNCC 1 cut(s) 733
BspPI GGATC 2 cut(s) 143, 577
BsrFI RCCGGY 2 cut(s) 740, 812
BsrI ACTGG 4 cut(s) 389, 924, 936, 1205
BssAI RCCGGY 2 cut(s) 740, 812
BssECI CCNNGG 1 cut(s) 1102
BssMI GATC 5 cut(s) 135, 196, 247, 582, 893
BssT1I CCWWGG 1 cut(s) 1102
Bst2UI CCWGG 1 cut(s) 620
Bst4CI ACNGT 2 cut(s) 792, 986
BstC8I GCNNGC 5 cut(s) 222, 356, 686, 855, 1029
BstDEI CTNAG 2 cut(s) 1032, 1040
BstF5I GGATG 1 cut(s) 361
BstFNI CGCG 1 cut(s) 760
BstKTI GATC 5 cut(s) 138, 199, 250, 585, 896
BstMBI GATC 5 cut(s) 135, 196, 247, 582, 893
BstMCI CGRYCG 1 cut(s) 896
BstMWI GCNNNNNNNGC 3 cut(s) 226, 465, 863
BstNI CCWGG 1 cut(s) 620
BstNSI RCATGY 1 cut(s) 884
BstSCI CCNGG 1 cut(s) 618
BstUI CGCG 1 cut(s) 760
BstV1I GCAGC 3 cut(s) 241, 383, 452
BstV2I GAAGAC 1 cut(s) 637
BstXI CCANNNNNNTGG 1 cut(s) 92
BsuI GTATCC 1 cut(s) 175
BsuRI GGCC 2 cut(s) 1101, 1143
BtgZI GCGATG 1 cut(s) 339
BtsCI GGATG 1 cut(s) 361
BtsIMutI CAGTG 1 cut(s) 991
Cac8I GCNNGC 5 cut(s) 222, 356, 686, 855, 1029
CaiI CAGNNNCTG 1 cut(s) 1039
CciI TCATGA 3 cut(s) 579, 868, 1021
Cfr10I RCCGGY 2 cut(s) 740, 812
Cfr13I GGNCC 2 cut(s) 622, 1117
CseI GACGC 1 cut(s) 859
Csp6I GTAC 4 cut(s) 157, 333, 609, 1052
CviAII CATG 8 cut(s) 226, 469, 580, 797, 869, 881, 1022, 1082
CviQI GTAC 4 cut(s) 157, 333, 609, 1052
DdeI CTNAG 2 cut(s) 1032, 1040
DpnI GATC 5 cut(s) 137, 198, 249, 584, 895
DpnII GATC 5 cut(s) 135, 196, 247, 582, 893
DrdI GACNNNNNNGTC 1 cut(s) 641
DseDI GACNNNNNNGTC 1 cut(s) 641
EaeI YGGCCR 1 cut(s) 1099
Ecl136II GAGCTC 1 cut(s) 386
Eco130I CCWWGG 1 cut(s) 1102
Eco24I GRGCYC 1 cut(s) 388
Eco32I GATATC 2 cut(s) 205, 559
Eco47I GGWCC 2 cut(s) 622, 1117
Eco53kI GAGCTC 1 cut(s) 386
EcoICRI GAGCTC 1 cut(s) 386
EcoRI GAATTC 1 cut(s) 1200
EcoRII CCWGG 1 cut(s) 618
EcoRV GATATC 2 cut(s) 205, 559
EcoT14I CCWWGG 1 cut(s) 1102
EcoT22I ATGCAT 1 cut(s) 882
EcoT38I GRGCYC 1 cut(s) 388
ErhI CCWWGG 1 cut(s) 1102
FaeI CATG 8 cut(s) 229, 472, 583, 800, 872, 884, 1025, 1085
FaqI GGGAC 1 cut(s) 411
FatI CATG 8 cut(s) 225, 468, 579, 796, 868, 880, 1021, 1081
FauNDI CATATG 1 cut(s) 1164
FblI GTMKAC 1 cut(s) 654
Fnu4HI GCNGC 3 cut(s) 230, 397, 466
FokI GGATG 1 cut(s) 348
FriOI GRGCYC 1 cut(s) 388
Fsp4HI GCNGC 3 cut(s) 230, 397, 466
FspBI CTAG 4 cut(s) 122, 437, 1017, 1216
GluI GCNGC 3 cut(s) 230, 397, 466
GsuI CTGGAG 1 cut(s) 372
HaeIII GGCC 2 cut(s) 1101, 1143
HapII CCGG 3 cut(s) 629, 741, 813
HgaI GACGC 1 cut(s) 859
Hin1II CATG 8 cut(s) 229, 472, 583, 800, 872, 884, 1025, 1085
HincII GTYRAC 2 cut(s) 59, 655
HindII GTYRAC 2 cut(s) 59, 655
HindIII AAGCTT 1 cut(s) 1188
HinfI GANTC 1 cut(s) 1085
HpaII CCGG 3 cut(s) 629, 741, 813
HphI GGTGA 3 cut(s) 521, 730, 812
Hpy166II GTNNAC 4 cut(s) 59, 572, 611, 655
Hpy188I TCNGA 5 cut(s) 128, 247, 563, 1041, 1090
Hpy8I GTNNAC 4 cut(s) 59, 572, 611, 655
Hpy99I CGWCG 2 cut(s) 557, 638
HpyAV CCTTC 4 cut(s) 72, 506, 635, 932
HpyCH4III ACNGT 2 cut(s) 792, 986
HpyCH4IV ACGT 2 cut(s) 45, 636
HpyCH4V TGCA 6 cut(s) 229, 278, 358, 468, 880, 1133
HpyF10VI GCNNNNNNNGC 3 cut(s) 226, 465, 863
HpyF3I CTNAG 2 cut(s) 1032, 1040
HpySE526I ACGT 2 cut(s) 45, 636
Hsp92II CATG 8 cut(s) 229, 472, 583, 800, 872, 884, 1025, 1085
Kpn2I TCCGGA 1 cut(s) 628
Kzo9I GATC 5 cut(s) 135, 196, 247, 582, 893
LmnI GCTCC 3 cut(s) 383, 391, 784
Lsp1109I GCAGC 3 cut(s) 241, 383, 452
LweI GCATC 3 cut(s) 265, 367, 867
MaeI CTAG 4 cut(s) 122, 437, 1017, 1216
MaeII ACGT 2 cut(s) 45, 636
MaeIII GTNAC 4 cut(s) 490, 593, 745, 1207
MalI GATC 5 cut(s) 137, 198, 249, 584, 895
MboI GATC 5 cut(s) 135, 196, 247, 582, 893
MboII GAAGA 5 cut(s) 206, 291, 637, 947, 1209
MhlI GDGCHC 1 cut(s) 388
MlsI TGGCCA 1 cut(s) 1101
MluNI TGGCCA 1 cut(s) 1101
MlyI GAGTC 1 cut(s) 1079
MmeI TCCRAC 4 cut(s) 586, 941, 951, 1144
MnlI CCTC 8 cut(s) 90, 111, 126, 172, 433, 465, 585, 1108
Mox20I TGGCCA 1 cut(s) 1101
Mph1103I ATGCAT 1 cut(s) 882
MroI TCCGGA 1 cut(s) 628
MscI TGGCCA 1 cut(s) 1101
MseI TTAA 2 cut(s) 476, 1158
MslI CAYNNNNRTG 2 cut(s) 27, 255
Msp20I TGGCCA 1 cut(s) 1101
MspI CCGG 3 cut(s) 629, 741, 813
MspR9I CCNGG 1 cut(s) 620
MvaI CCWGG 1 cut(s) 620
MvnI CGCG 1 cut(s) 760
MwoI GCNNNNNNNGC 3 cut(s) 226, 465, 863
NdeI CATATG 1 cut(s) 1164
NdeII GATC 5 cut(s) 135, 196, 247, 582, 893
NlaIII CATG 8 cut(s) 229, 472, 583, 800, 872, 884, 1025, 1085
NlaIV GGNNCC 1 cut(s) 733
NmuCI GTSAC 2 cut(s) 593, 1207
NsiI ATGCAT 1 cut(s) 882
NspI RCATGY 1 cut(s) 884
PagI TCATGA 3 cut(s) 579, 868, 1021
PkrI GCNGC 3 cut(s) 231, 398, 467
Ple19I CGATCG 1 cut(s) 896
PleI GAGTC 1 cut(s) 1079
PpsI GAGTC 1 cut(s) 1079
PshBI ATTAAT 1 cut(s) 1158
PsiI TTATAA 1 cut(s) 807
Psp124BI GAGCTC 1 cut(s) 388
Psp6I CCWGG 1 cut(s) 618
PspGI CCWGG 1 cut(s) 618
PspN4I GGNNCC 1 cut(s) 733
PspPI GGNCC 2 cut(s) 622, 1117
PstNI CAGNNNCTG 1 cut(s) 1039
PvuI CGATCG 1 cut(s) 896
RsaI GTAC 4 cut(s) 158, 334, 610, 1053
RsaNI GTAC 4 cut(s) 157, 333, 609, 1052
RseI CAYNNNNRTG 2 cut(s) 27, 255
SacI GAGCTC 1 cut(s) 388
SalI GTCGAC 1 cut(s) 653
SaqAI TTAA 2 cut(s) 476, 1158
SatI GCNGC 3 cut(s) 230, 397, 466
Sau3AI GATC 5 cut(s) 135, 196, 247, 582, 893
Sau96I GGNCC 2 cut(s) 622, 1117
SchI GAGTC 1 cut(s) 1079
ScrFI CCNGG 1 cut(s) 620
SduI GDGCHC 1 cut(s) 388
SfaNI GCATC 3 cut(s) 265, 367, 867
SgrAI CRCCGGYG 1 cut(s) 740
SinI GGWCC 2 cut(s) 622, 1117
SmiMI CAYNNNNRTG 2 cut(s) 27, 255
SpeI ACTAGT 1 cut(s) 1016
SsiI CCGC 3 cut(s) 160, 546, 760
SspMI CTAG 4 cut(s) 122, 437, 1017, 1216
SstI GAGCTC 1 cut(s) 388
StyD4I CCNGG 1 cut(s) 618
StyI CCWWGG 1 cut(s) 1102
TaaI ACNGT 2 cut(s) 792, 986
TaiI ACGT 2 cut(s) 48, 639
TaqI TCGA 6 cut(s) 207, 348, 555, 654, 892, 896
TatI WGTACW 2 cut(s) 332, 1051
Tru1I TTAA 2 cut(s) 476, 1158
Tru9I TTAA 2 cut(s) 476, 1158
TscAI CASTG 1 cut(s) 991
TseFI GTSAC 2 cut(s) 593, 1207
TseI GCWGC 3 cut(s) 229, 396, 465
Tsp45I GTSAC 2 cut(s) 593, 1207
TspDTI ATGAA 5 cut(s) 207, 273, 785, 987, 1107
TspGWI ACGGA 2 cut(s) 229, 596
TspRI CASTG 1 cut(s) 991
VpaK11BI GGWCC 2 cut(s) 622, 1117
VspI ATTAAT 1 cut(s) 1158
XapI RAATTY 2 cut(s) 599, 1200
XbaI TCTAGA 1 cut(s) 436
XceI RCATGY 1 cut(s) 884
XmiI GTMKAC 1 cut(s) 654
XspI CTAG 4 cut(s) 122, 437, 1017, 1216
Zsp2I ATGCAT 1 cut(s) 882
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.