Rh3DG024900

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0014542
Physical Location & Seq
Reverse (-)
1630927 .. 1635455
4529 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG024900.1

Sequence Viewer

Length: 1272 bp
ATGGCCGACGACCTGTTTGAAGGTCTGCCTCCGCCTTCTTCTGCAAACCCTCTTCCCTCTTCTGAGCCTCAAGAACAGCCCAAAGAACCCAAACCCAAACCAAAGTTCGCTTCTTTCAGCACCGACTCTCCTTCTTCTCAAGCTCCACAACCAGCTCTGAAAAGCGCGTTGAAGAAGCCTAAGGAGCCCTCTGAGCCAAACCCAGTTCTCAAAAGCGCCCTCAAGCGACCCAAGGAGCCCTCTGAACCAAACCCAGAGGCCACTGTGCCTGGAAAGAAGTTGAGGTTTAAAACCACGACCGATGCCTCAGAGAAACAGGTTATAGAGGCCATGCAGAAGATAGCTTCACATATAAAGAATCCTACAAAGTTTGGGAAGGCTTCAAAGCTTGCCATCCAGCTGATTCAGGCAGGAAGTGTCAAGGCCGAAACCAGTGATTACTTCTTTTCCATATTAGAGGCTGCAATGACATCATCTACCTCTTGCACGGATCCTTCCATACGAGCAGATATCCATGCACTCTTCTCAGCAGCACAAGATGCCTCTGAGTGTCTCAATAAGAAGCAAAAGAATCAGTTAACAACATGGACAATCAGAGCTGTGATGGCAAATGATTTACTCACTGATGACAGCTTCCTGTTTTCAAAAACAGCTGGACTATTAAAAGAAGAAATATCTAATCTGCCAGTTGCAACTGAGGATGATGACAGAGAAGAAGCAGCTGCCCTAGAAGTTGAAACTAAAACAACTGATGAGGATGATCTAATGAAGAAGGACATGACTTCGGATGTACCGGATGAAGAAAATAATGAGAAAGAGTCTGATCCATTTGGGCTAGATGCATTTTTAACTCCAAGCTCTATGAAGAAAGGTGATAAAGTAAAGGGAAAGAAAGATGTAACTCCCAAAGTCAAGGAGGAGGAAGAGACCAAGAGATTCCTCAAGTCACAGAGAGAAGCCTCGGTCCTTTGTTTAGAGATAGCTGCTCGGCGTTATAAAACTCCATGGTGCCAGACAGTTATAGACATATTAGCAAAGCATGCTTTTGATAACATAAGGAGGTTCACATCTGAACAAAGGAATGCCATTGGGAAACTTTGGGCTTCCATACGGGAACAGCATAATCGTAGAAAACAAGGGAAAACAGTTACTGGGAAACTTGACGTGAATGGTTTCGAATGGCTGCAGCAAAAATATGCTAATGAGAAGATCAGCATTCGGCATTCTGTTGGCGGTAGTGGGGATCGTAAAACTGAAATGTGGCTTGGTTGA
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
No domains found.

Protein Analysis

423

Amino Acids

46.99

Weight (kDa)

7.59

Isoelectric Point (pI)

52.72

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0014542)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04560
fragaria_vesca FvH4_6g02310
malus_domestica MD04G1228300.v1.1 MD04G1228400.v1.1 MD12G1245500.v1.1
prunus_persica Prupe.6G348300_v2.0.a1
pyrus_communis pycom12g22500
rosa_chinensis RchiOBHm_Chr3g0450061
rosa_laevigata RLG00000025760
rosa_multiflora Rmu_sc0002646.1_g000024
rosa_roxburghii Rroxscaffold_6G00427840
rosa_rugosa Rorug02G0625200
rosa_samantha Rh3AG024300 Rh3BG024900 Rh3CG023800 Rh3DG024900
rosa_wichuraiana Rw3G001940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 996
AccB1I GGYRCC 1 cut(s) 1008
AccII CGCG 1 cut(s) 167
AciI CCGC 2 cut(s) 32, 1233
AclWI GGATC 4 cut(s) 485, 498, 818, 1251
AcoI YGGCCR 1 cut(s) 3
AfaI GTAC 1 cut(s) 792
AgsI TTSAA 5 cut(s) 20, 172, 384, 645, 737
AjiI CACGTC 1 cut(s) 1165
AjnI CCWGG 1 cut(s) 268
AjuI GAANNNNNNNTTGG 5 cut(s) 89, 94, 121, 126, 1248
Alw26I GTCTC 2 cut(s) 557, 920
AlwI GGATC 4 cut(s) 485, 498, 818, 1251
AlwNI CAGNNNCTG 1 cut(s) 1151
AoxI GGCC 4 cut(s) 3, 258, 327, 423
ApeKI GCWGC 7 cut(s) 461, 530, 719, 722, 983, 1183, 1186
ArsI GACNNNNNNTTYG 1 cut(s) 31
Asp700I GAANNNNTTC 1 cut(s) 1172
AspLEI GCGC 2 cut(s) 167, 218
AspS9I GGNCC 1 cut(s) 964
AsuHPI GGTGA 1 cut(s) 884
AsuII TTCGAA 1 cut(s) 1176
AvaII GGWCC 1 cut(s) 964
AxyI CCTNAGG 1 cut(s) 180
BamHI GGATCC 1 cut(s) 490
BanI GGYRCC 1 cut(s) 1008
BanII GRGCYC 2 cut(s) 189, 240
BbvI GCAGC 7 cut(s) 448, 542, 709, 731, 970, 1170, 1198
BccI CCATC 2 cut(s) 401, 598
BciT130I CCWGG 1 cut(s) 270
BcoDI GTCTC 2 cut(s) 557, 920
BfaI CTAG 2 cut(s) 728, 836
BfmI CTRYAG 1 cut(s) 1184
BfoI RGCGCY 1 cut(s) 219
BisI GCNGC 7 cut(s) 462, 531, 720, 723, 984, 1184, 1187
BlsI GCNGC 7 cut(s) 463, 532, 721, 724, 985, 1185, 1188
Bme1390I CCNGG 1 cut(s) 270
Bme18I GGWCC 1 cut(s) 964
BmgBI CACGTC 1 cut(s) 1165
BmgT120I GGNCC 1 cut(s) 964
BmiI GGNNCC 4 cut(s) 186, 237, 492, 1010
BmrFI CCNGG 1 cut(s) 270
BmrI ACTGGG 2 cut(s) 197, 1161
BmsI GCATC 3 cut(s) 292, 529, 829
BmuI ACTGGG 2 cut(s) 197, 1161
Bpu14I TTCGAA 1 cut(s) 1176
BpuEI CTTGAG 4 cut(s) 54, 123, 206, 926
BsaI GGTCTC 1 cut(s) 920
BsaJI CCNNGG 3 cut(s) 231, 960, 1004
BsaWI WCCGGW 1 cut(s) 793
BsaXI ACNNNNNCTCC 2 cut(s) 112, 142
Bse1I ACTGG 4 cut(s) 203, 432, 686, 1156
Bse21I CCTNAGG 1 cut(s) 180
Bse3DI GCAATG 1 cut(s) 471
BseBI CCWGG 1 cut(s) 270
BseDI CCNNGG 3 cut(s) 231, 960, 1004
BseGI GGATG 5 cut(s) 393, 706, 763, 793, 802
BseMI GCAATG 1 cut(s) 471
BseMII CTCAG 6 cut(s) 54, 183, 321, 537, 540, 687
BseNI ACTGG 4 cut(s) 203, 432, 686, 1156
BseRI GAGGAG 1 cut(s) 932
BseXI GCAGC 7 cut(s) 448, 542, 709, 731, 970, 1170, 1198
Bsh1236I CGCG 1 cut(s) 167
Bsh1285I CGRYCG 1 cut(s) 300
BshFI GGCC 4 cut(s) 5, 260, 329, 425
BshNI GGYRCC 1 cut(s) 1008
BsiEI CGRYCG 1 cut(s) 300
BsiSI CCGG 1 cut(s) 794
BsmAI GTCTC 2 cut(s) 557, 920
BsmI GAATGC 3 cut(s) 1087, 1215, 1222
BsnI GGCC 4 cut(s) 5, 260, 329, 425
Bso31I GGTCTC 1 cut(s) 920
Bsp119I TTCGAA 1 cut(s) 1176
Bsp1286I GDGCHC 2 cut(s) 189, 240
Bsp143I GATC 5 cut(s) 490, 760, 823, 1209, 1243
Bsp19I CCATGG 1 cut(s) 1004
BspACI CCGC 2 cut(s) 32, 1233
BspANI GGCC 4 cut(s) 5, 260, 329, 425
BspCNI CTCAG 6 cut(s) 55, 184, 320, 538, 539, 688
BspFNI CGCG 1 cut(s) 167
BspLI GGNNCC 4 cut(s) 186, 237, 492, 1010
BspMAI CTGCAG 1 cut(s) 1188
BspPI GGATC 4 cut(s) 485, 498, 818, 1251
BspT104I TTCGAA 1 cut(s) 1176
BspT107I GGYRCC 1 cut(s) 1008
BspTNI GGTCTC 1 cut(s) 920
BsrDI GCAATG 1 cut(s) 471
BsrI ACTGG 4 cut(s) 203, 432, 686, 1156
BssECI CCNNGG 3 cut(s) 231, 960, 1004
BssMI GATC 5 cut(s) 490, 760, 823, 1209, 1243
BssT1I CCWWGG 2 cut(s) 231, 1004
Bst2UI CCWGG 1 cut(s) 270
Bst4CI ACNGT 3 cut(s) 265, 1018, 1147
Bst6I CTCTTC 4 cut(s) 57, 64, 527, 918
BstAPI GCANNNNNTGC 2 cut(s) 539, 1040
BstBI TTCGAA 1 cut(s) 1176
BstC8I GCNNGC 2 cut(s) 390, 1041
BstDEI CTNAG 7 cut(s) 63, 180, 192, 307, 526, 546, 696
BstDSI CCRYGG 1 cut(s) 1004
BstF5I GGATG 5 cut(s) 393, 706, 763, 793, 802
BstFNI CGCG 1 cut(s) 167
BstH2I RGCGCY 1 cut(s) 219
BstHHI GCGC 2 cut(s) 167, 218
BstKTI GATC 5 cut(s) 493, 763, 826, 1212, 1246
BstMAI GTCTC 2 cut(s) 557, 920
BstMBI GATC 5 cut(s) 490, 760, 823, 1209, 1243
BstMCI CGRYCG 1 cut(s) 300
BstMWI GCNNNNNNNGC 5 cut(s) 184, 193, 539, 605, 1040
BstNI CCWGG 1 cut(s) 270
BstNSI RCATGY 1 cut(s) 1043
BstSCI CCNGG 1 cut(s) 268
BstSFI CTRYAG 1 cut(s) 1184
BstUI CGCG 1 cut(s) 167
BstV1I GCAGC 7 cut(s) 448, 542, 709, 731, 970, 1170, 1198
BstX2I RGATCY 1 cut(s) 490
BstYI RGATCY 1 cut(s) 490
Bsu36I CCTNAGG 1 cut(s) 180
BsuRI GGCC 4 cut(s) 5, 260, 329, 425
BtgI CCRYGG 1 cut(s) 1004
BtrI CACGTC 1 cut(s) 1165
BtsCI GGATG 5 cut(s) 393, 706, 763, 793, 802
BtsIMutI CAGTG 3 cut(s) 261, 439, 621
Cac8I GCNNGC 2 cut(s) 390, 1041
CaiI CAGNNNCTG 1 cut(s) 1151
CfoI GCGC 2 cut(s) 167, 218
Cfr13I GGNCC 1 cut(s) 964
Csp6I GTAC 1 cut(s) 791
CviAII CATG 6 cut(s) 331, 515, 585, 778, 1005, 1040
CviQI GTAC 1 cut(s) 791
DdeI CTNAG 7 cut(s) 63, 180, 192, 307, 526, 546, 696
DpnI GATC 5 cut(s) 492, 762, 825, 1211, 1245
DpnII GATC 5 cut(s) 490, 760, 823, 1209, 1243
DraI TTTAAA 1 cut(s) 289
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 4 cut(s) 57, 64, 527, 918
EarI CTCTTC 4 cut(s) 57, 64, 527, 918
EciI GGCGGA 1 cut(s) 21
Eco130I CCWWGG 2 cut(s) 231, 1004
Eco24I GRGCYC 2 cut(s) 189, 240
Eco31I GGTCTC 1 cut(s) 920
Eco32I GATATC 1 cut(s) 511
Eco47I GGWCC 1 cut(s) 964
Eco81I CCTNAGG 1 cut(s) 180
EcoRII CCWGG 1 cut(s) 268
EcoRV GATATC 1 cut(s) 511
EcoT14I CCWWGG 2 cut(s) 231, 1004
EcoT22I ATGCAT 1 cut(s) 844
EcoT38I GRGCYC 2 cut(s) 189, 240
ErhI CCWWGG 2 cut(s) 231, 1004
FaeI CATG 6 cut(s) 334, 518, 588, 781, 1008, 1043
FatI CATG 6 cut(s) 330, 514, 584, 777, 1004, 1039
Fnu4HI GCNGC 7 cut(s) 462, 531, 720, 723, 984, 1184, 1187
FokI GGATG 5 cut(s) 380, 713, 770, 800, 809
FriOI GRGCYC 2 cut(s) 189, 240
Fsp4HI GCNGC 7 cut(s) 462, 531, 720, 723, 984, 1184, 1187
FspBI CTAG 2 cut(s) 728, 836
GlaI GCGC 2 cut(s) 166, 217
GluI GCNGC 7 cut(s) 462, 531, 720, 723, 984, 1184, 1187
HaeII RGCGCY 1 cut(s) 219
HaeIII GGCC 4 cut(s) 5, 260, 329, 425
HapII CCGG 1 cut(s) 794
HhaI GCGC 2 cut(s) 167, 218
Hin1II CATG 6 cut(s) 334, 518, 588, 781, 1008, 1043
Hin6I GCGC 2 cut(s) 165, 216
HinP1I GCGC 2 cut(s) 165, 216
HincII GTYRAC 1 cut(s) 579
HindII GTYRAC 1 cut(s) 579
HindIII AAGCTT 1 cut(s) 386
HinfI GANTC 6 cut(s) 125, 358, 403, 571, 818, 936
HpaI GTTAAC 1 cut(s) 579
HpaII CCGG 1 cut(s) 794
HphI GGTGA 1 cut(s) 884
Hpy166II GTNNAC 2 cut(s) 579, 1065
Hpy188III TCNNGA 1 cut(s) 71
Hpy8I GTNNAC 2 cut(s) 579, 1065
Hpy99I CGWCG 1 cut(s) 11
HpyAV CCTTC 6 cut(s) 14, 45, 141, 370, 504, 766
HpyCH4III ACNGT 3 cut(s) 265, 1018, 1147
HpyCH4IV ACGT 1 cut(s) 1164
HpyCH4V TGCA 8 cut(s) 44, 334, 464, 486, 518, 692, 842, 1186
HpyF10VI GCNNNNNNNGC 5 cut(s) 184, 193, 539, 605, 1040
HpyF3I CTNAG 7 cut(s) 63, 180, 192, 307, 526, 546, 696
HpySE526I ACGT 1 cut(s) 1164
Hsp92II CATG 6 cut(s) 334, 518, 588, 781, 1008, 1043
HspAI GCGC 2 cut(s) 165, 216
KspAI GTTAAC 1 cut(s) 579
Kzo9I GATC 5 cut(s) 490, 760, 823, 1209, 1243
LmnI GCTCC 3 cut(s) 148, 184, 235
Lsp1109I GCAGC 7 cut(s) 448, 542, 709, 731, 970, 1170, 1198
LweI GCATC 3 cut(s) 292, 529, 829
MaeI CTAG 2 cut(s) 728, 836
MaeII ACGT 1 cut(s) 1164
MaeIII GTNAC 3 cut(s) 898, 945, 1147
MalI GATC 5 cut(s) 492, 762, 825, 1211, 1245
MboI GATC 5 cut(s) 490, 760, 823, 1209, 1243
MflI RGATCY 1 cut(s) 490
MhlI GDGCHC 2 cut(s) 189, 240
MlyI GAGTC 2 cut(s) 119, 827
Mph1103I ATGCAT 1 cut(s) 844
MroXI GAANNNNTTC 1 cut(s) 1172
MseI TTAA 4 cut(s) 288, 578, 662, 848
MspA1I CMGCKG 3 cut(s) 400, 653, 722
MspI CCGG 1 cut(s) 794
MspR9I CCNGG 1 cut(s) 270
Mva1269I GAATGC 3 cut(s) 1087, 1215, 1222
MvaI CCWGG 1 cut(s) 270
MvnI CGCG 1 cut(s) 167
MwoI GCNNNNNNNGC 5 cut(s) 184, 193, 539, 605, 1040
NcoI CCATGG 1 cut(s) 1004
NdeII GATC 5 cut(s) 490, 760, 823, 1209, 1243
NlaIII CATG 6 cut(s) 334, 518, 588, 781, 1008, 1043
NlaIV GGNNCC 4 cut(s) 186, 237, 492, 1010
NmeAIII GCCGAG 1 cut(s) 967
NmuCI GTSAC 1 cut(s) 945
NsiI ATGCAT 1 cut(s) 844
NspI RCATGY 1 cut(s) 1043
NspV TTCGAA 1 cut(s) 1176
PaeI GCATGC 1 cut(s) 1043
PctI GAATGC 3 cut(s) 1087, 1215, 1222
PdmI GAANNNNTTC 1 cut(s) 1172
PfeI GAWTC 4 cut(s) 358, 403, 571, 936
PkrI GCNGC 7 cut(s) 463, 532, 721, 724, 985, 1185, 1188
PleI GAGTC 2 cut(s) 119, 826
PpsI GAGTC 2 cut(s) 119, 826
PsiI TTATAA 1 cut(s) 996
Psp6I CCWGG 1 cut(s) 268
PspGI CCWGG 1 cut(s) 268
PspN4I GGNNCC 4 cut(s) 186, 237, 492, 1010
PspPI GGNCC 1 cut(s) 964
PstI CTGCAG 1 cut(s) 1188
PstNI CAGNNNCTG 1 cut(s) 1151
PsuI RGATCY 1 cut(s) 490
PvuII CAGCTG 3 cut(s) 400, 653, 722
RsaI GTAC 1 cut(s) 792
RsaNI GTAC 1 cut(s) 791
SaqAI TTAA 4 cut(s) 288, 578, 662, 848
SatI GCNGC 7 cut(s) 462, 531, 720, 723, 984, 1184, 1187
Sau3AI GATC 5 cut(s) 490, 760, 823, 1209, 1243
Sau96I GGNCC 1 cut(s) 964
SchI GAGTC 2 cut(s) 119, 827
ScrFI CCNGG 1 cut(s) 270
SduI GDGCHC 2 cut(s) 189, 240
SfaNI GCATC 3 cut(s) 292, 529, 829
SfcI CTRYAG 1 cut(s) 1184
SfuI TTCGAA 1 cut(s) 1176
SinI GGWCC 1 cut(s) 964
SmlI CTYRAG 4 cut(s) 69, 138, 221, 941
SmoI CTYRAG 4 cut(s) 69, 138, 221, 941
SphI GCATGC 1 cut(s) 1043
SsiI CCGC 2 cut(s) 32, 1233
SspMI CTAG 2 cut(s) 728, 836
StyD4I CCNGG 1 cut(s) 268
StyI CCWWGG 2 cut(s) 231, 1004
TaaI ACNGT 3 cut(s) 265, 1018, 1147
TaiI ACGT 1 cut(s) 1167
TaqI TCGA 1 cut(s) 1176
TaqII GACCGA 2 cut(s) 314, 952
TfiI GAWTC 4 cut(s) 358, 403, 571, 936
Tru1I TTAA 4 cut(s) 288, 578, 662, 848
Tru9I TTAA 4 cut(s) 288, 578, 662, 848
TscAI CASTG 3 cut(s) 268, 439, 628
TseFI GTSAC 1 cut(s) 945
TseI GCWGC 7 cut(s) 461, 530, 719, 722, 983, 1183, 1186
Tsp45I GTSAC 1 cut(s) 945
TspDTI ATGAA 3 cut(s) 782, 813, 878
TspGWI ACGGA 1 cut(s) 503
TspRI CASTG 3 cut(s) 268, 439, 628
VpaK11BI GGWCC 1 cut(s) 964
XceI RCATGY 1 cut(s) 1043
XmnI GAANNNNTTC 1 cut(s) 1172
XspI CTAG 2 cut(s) 728, 836
Zsp2I ATGCAT 1 cut(s) 844
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.