Rh3CG266500

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0016410
Physical Location & Seq
Reverse (-)
26187188 .. 26192927
5740 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG266500.1

Sequence Viewer

Length: 1413 bp
ATGAAGTTGCAGTCTTTGAATTCGGGATACGAAATGCGAACTCTCATTGCCAAACCCTATGGCTTCTCAATGCGCAAAACCACAACAACTATCCGATCCTGCTCTCTCCAACTCACGACCTTCGAGGCCAATCCGACGCCAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCCGCTTCAGTTTTAGCATTTGACCACAACCCCACTTTGGGCCTCTTAGAGAAAGGTCCCGTGTTTGAGGTGCATGGTGGTGATAATGGTGCATTGAGAACAATTTTGGGCCAATTTGATGGAGAGTTACTTAACAATGTCCATGGTCTTTCGTCTTTGTTGCAATCGGGAAAACAGGTGATGTCTGAGTTGGATTTTGCTGCTGAAATTCTCCCAAAATGTATCAAGATCTTAGCAGTGACAGGGACTAATGGAAAATCAACTGTTGTCACTTTTGCTGGACAGATGCTTAATCATTTGGGTATCAACACATTTTTGGGGGGTAATCTTAGAAATCCACTCTCAGAGGCTCAGTTACTAAATGGAAATTCCAACAAGTACTTCTGCCCTTCTGTAGCTGTAGTGTTAAACCTTACACCTGATCATTTAGAAAGGCACAGGACAATGAGAGACTATGCAGTGACTAAATGCCAGTTATTTCATCAAATGAGTGATGCCAATCTTGGGCTTCTTTGTTTTGGGAACCGGTACTTAAATGAAGCAGTTATGGGAAGTTTGAATGAAATTAATCTTGCTTGGATAGGAGCCACTCCAGGCGTAAGAATTGATATGGAAGCAATAATTGCAAGCTTTGAAGTGCCTGCCTTGGGAATCAATTCTCAACTCCAATTGGGCGCAATGAACATGATTGGAACACAGAACTGTCACAATGCTGCAGTTGCTGTCTTATCTGTTGTTGGACTGGATGTAGGACTTGATGTTGAATCCATTGGTCCATGTATAGAAAAGTTAAGGCCACCACCTCATCGTATGCAAATTGTATGCAAGGATATGCACGGGGTAACTTGGGTTGATGACAGCAAGGCAACAAATGTAGAAGCTATGTACATAGGACTAATGGGTCTAAAGAGGCAAAAGTCTGTGATTCTACTTGGTGGCCTTGCGAAGGTTGTGGACGGACATGTGTCTAATGGTTTTGAACAATTGATAGAACAGTACCACAGACGTGTAATCACTTTTGGATCTTCAGGACTGCTGATTCAAAGGACATTATCCGATAGTGGTCTTAGTATACCCTCCATCAGAGCAGAAAATCTGAAGGATGCTGTCAGCTTGGCTAGGAAGATGGCAGAACATGGGGACGTTATTTTACCAAGTCCAGGTTGTGCAAGCTTTGATGAATTTAGAAATTTTGAGCACAGGGGGATGGTTTTCCAGGAGCTGGCTTTTGCATCATCTTAA
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
2-Hacid_dh_C Mur_ligase_C Mur_ligase_M

Protein Analysis

470

Amino Acids

50.83

Weight (kDa)

6.92

Isoelectric Point (pI)

33.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Mur_ligase_M PF08245 180 - 300 5.3e-11 Mur ligase middle domain
Mur_ligase_C PF02875 326 - 443 3e-07 Mur ligase, glutamate ligase domain
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: OG0016410)

Species Orthologous Gene IDs
malus_domestica MD12G1063100.v1.1
prunus_persica Prupe.7G070400_v2.0.a1
pyrus_communis pycom12g05560
rosa_chinensis RchiOBHm_Chr3g0480711 RchiOBHm_Chr3g0480721
rosa_multiflora Rmu_sc0001135.1_g000007 Rmu_sc0003902.1_g000026
rosa_roxburghii Rroxscaffold_6G00401140
rosa_rugosa Rorug03G0185000 Rorug03G0185100
rosa_samantha Rh3AG237200 Rh3BG270300 Rh3CG266500 Rh3DG262700
rosa_wichuraiana Rw3G021240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 1071
Acc16I TGCGCA 1 cut(s) 74
AccB1I GGYRCC 1 cut(s) 170
AccB7I CCANNNNNTGG 1 cut(s) 1393
AccI GTMKAC 1 cut(s) 1243
AciI CCGC 2 cut(s) 146, 174
AclWI GGATC 2 cut(s) 90, 1201
AcsI RAATTY 5 cut(s) 19, 378, 538, 1352, 1360
AcuI CTGAAG 3 cut(s) 162, 1182, 1289
AcyI GRCGYC 1 cut(s) 137
AfaI GTAC 4 cut(s) 551, 701, 1058, 1169
AfiI CCNNNNNNNGG 7 cut(s) 208, 209, 675, 818, 1117, 1331, 1393
AflIII ACRYGT 2 cut(s) 1132, 1177
AgeI ACCGGT 1 cut(s) 696
AgsI TTSAA 6 cut(s) 19, 730, 806, 935, 1151, 1214
AjiI CACGTC 1 cut(s) 1178
AjnI CCWGG 3 cut(s) 763, 1330, 1386
AjuI GAANNNNNNNTTGG 2 cut(s) 536, 568
AleI CACNNNNGTG 1 cut(s) 1176
AluBI AGCT 7 cut(s) 143, 569, 801, 1052, 1284, 1344, 1393
AluI AGCT 7 cut(s) 143, 569, 801, 1052, 1284, 1344, 1393
Alw21I GWGCWC 1 cut(s) 1371
Alw26I GTCTC 1 cut(s) 615
AlwI GGATC 2 cut(s) 90, 1201
AlwNI CAGNNNCTG 2 cut(s) 893, 1393
AoxI GGCC 5 cut(s) 126, 211, 280, 965, 1108
ApeKI GCWGC 3 cut(s) 143, 371, 884
ApoI RAATTY 5 cut(s) 19, 378, 538, 1352, 1360
AseI ATTAAT 1 cut(s) 738
AsiGI ACCGGT 1 cut(s) 696
Asp700I GAANNNNTTC 1 cut(s) 826
AspLEI GCGC 2 cut(s) 75, 848
AspS9I GGNCC 4 cut(s) 211, 227, 280, 944
AsuHPI GGTGA 2 cut(s) 263, 361
AvaII GGWCC 2 cut(s) 227, 944
BanI GGYRCC 1 cut(s) 170
Bbv12I GWGCWC 1 cut(s) 1371
BbvI GCAGC 3 cut(s) 130, 358, 871
BccI CCATC 4 cut(s) 284, 1259, 1291, 1372
BciT130I CCWGG 3 cut(s) 765, 1332, 1388
BciVI GTATCC 1 cut(s) 20
BclI TGATCA 1 cut(s) 592
BcoDI GTCTC 1 cut(s) 615
BfaI CTAG 1 cut(s) 1290
BfmI CTRYAG 3 cut(s) 564, 570, 885
BfuI GTATCC 1 cut(s) 20
BglII AGATCT 1 cut(s) 399
BisI GCNGC 5 cut(s) 144, 147, 174, 372, 885
BlsI GCNGC 5 cut(s) 145, 148, 175, 373, 886
BmcAI AGTACT 1 cut(s) 551
Bme1390I CCNGG 3 cut(s) 765, 1332, 1388
Bme18I GGWCC 2 cut(s) 227, 944
BmgBI CACGTC 1 cut(s) 1178
BmgT120I GGNCC 4 cut(s) 211, 227, 280, 944
BmiI GGNNCC 4 cut(s) 172, 229, 695, 757
BmrFI CCNGG 3 cut(s) 765, 1332, 1388
BmsI GCATC 3 cut(s) 447, 655, 1264
BoxI GACNNNNGTC 1 cut(s) 1135
BplI GAGNNNNNCTC 2 cut(s) 142, 174
BpmI CTGGAG 1 cut(s) 747
BsaBI GATNNNNATC 1 cut(s) 669
BsaHI GRCGYC 1 cut(s) 137
BsaJI CCNNGG 2 cut(s) 313, 816
BsaWI WCCGGW 1 cut(s) 696
Bsc4I CCNNNNNNNGG 7 cut(s) 208, 209, 675, 818, 1117, 1331, 1393
Bse118I RCCGGY 1 cut(s) 696
Bse1I ACTGG 2 cut(s) 643, 918
Bse3DI GCAATG 2 cut(s) 45, 855
Bse8I GATNNNNATC 1 cut(s) 669
BseBI CCWGG 3 cut(s) 765, 1332, 1388
BseDI CCNNGG 2 cut(s) 313, 816
BseGI GGATG 3 cut(s) 922, 1279, 1383
BseJI GATNNNNATC 1 cut(s) 669
BseLI CCNNNNNNNGG 7 cut(s) 208, 209, 675, 818, 1117, 1331, 1393
BseMI GCAATG 2 cut(s) 45, 855
BseMII CTCAG 3 cut(s) 348, 528, 536
BseNI ACTGG 2 cut(s) 643, 918
BseXI GCAGC 3 cut(s) 130, 358, 871
BshFI GGCC 5 cut(s) 128, 213, 282, 967, 1110
BshNI GGYRCC 1 cut(s) 170
BshTI ACCGGT 1 cut(s) 696
BsiHKAI GWGCWC 1 cut(s) 1371
BsiSI CCGG 1 cut(s) 697
BslFI GGGAC 3 cut(s) 213, 430, 1325
BslI CCNNNNNNNGG 7 cut(s) 208, 209, 675, 818, 1117, 1331, 1393
BsmAI GTCTC 1 cut(s) 615
BsmFI GGGAC 3 cut(s) 213, 430, 1325
BsnI GGCC 5 cut(s) 128, 213, 282, 967, 1110
Bsp1286I GDGCHC 1 cut(s) 1371
Bsp1407I TGTACA 1 cut(s) 1056
Bsp143I GATC 4 cut(s) 95, 399, 592, 1193
Bsp19I CCATGG 1 cut(s) 313
BspACI CCGC 2 cut(s) 146, 174
BspANI GGCC 5 cut(s) 128, 213, 282, 967, 1110
BspCNI CTCAG 3 cut(s) 349, 527, 535
BspLI GGNNCC 4 cut(s) 172, 229, 695, 757
BspMAI CTGCAG 1 cut(s) 889
BspPI GGATC 2 cut(s) 90, 1201
BspT107I GGYRCC 1 cut(s) 170
BsrDI GCAATG 2 cut(s) 45, 855
BsrFI RCCGGY 1 cut(s) 696
BsrGI TGTACA 1 cut(s) 1056
BsrI ACTGG 2 cut(s) 643, 918
BssAI RCCGGY 1 cut(s) 696
BssECI CCNNGG 2 cut(s) 313, 816
BssMI GATC 4 cut(s) 95, 399, 592, 1193
BssNAI GTATAC 1 cut(s) 1244
BssNI GRCGYC 1 cut(s) 137
BssT1I CCWWGG 2 cut(s) 313, 816
Bst1107I GTATAC 1 cut(s) 1244
Bst2UI CCWGG 3 cut(s) 765, 1332, 1388
Bst4CI ACNGT 3 cut(s) 436, 875, 1167
BstACI GRCGYC 1 cut(s) 137
BstAPI GCANNNNNTGC 1 cut(s) 794
BstAUI TGTACA 1 cut(s) 1056
BstC8I GCNNGC 6 cut(s) 141, 156, 799, 813, 1342, 1395
BstDEI CTNAG 7 cut(s) 217, 357, 403, 500, 514, 522, 1238
BstDSI CCRYGG 1 cut(s) 313
BstENI CCTNNNNNAGG 1 cut(s) 1115
BstF5I GGATG 3 cut(s) 922, 1279, 1383
BstHHI GCGC 2 cut(s) 75, 848
BstKTI GATC 4 cut(s) 98, 402, 595, 1196
BstMAI GTCTC 1 cut(s) 615
BstMBI GATC 4 cut(s) 95, 399, 592, 1193
BstMWI GCNNNNNNNGC 4 cut(s) 155, 170, 794, 890
BstNI CCWGG 3 cut(s) 765, 1332, 1388
BstNSI RCATGY 1 cut(s) 1136
BstPAI GACNNNNGTC 1 cut(s) 1135
BstSCI CCNGG 3 cut(s) 763, 1330, 1386
BstSFI CTRYAG 3 cut(s) 564, 570, 885
BstV1I GCAGC 3 cut(s) 130, 358, 871
BstX2I RGATCY 2 cut(s) 399, 1193
BstXI CCANNNNNNTGG 1 cut(s) 290
BstYI RGATCY 2 cut(s) 399, 1193
BstZ17I GTATAC 1 cut(s) 1244
BsuI GTATCC 1 cut(s) 20
BsuRI GGCC 5 cut(s) 128, 213, 282, 967, 1110
BtgI CCRYGG 1 cut(s) 313
BtrI CACGTC 1 cut(s) 1178
BtsCI GGATG 3 cut(s) 922, 1279, 1383
BtsI GCAGTG 2 cut(s) 414, 636
BtsIMutI CAGTG 2 cut(s) 414, 636
Cac8I GCNNGC 6 cut(s) 141, 156, 799, 813, 1342, 1395
CaiI CAGNNNCTG 2 cut(s) 893, 1393
CfoI GCGC 2 cut(s) 75, 848
Cfr10I RCCGGY 1 cut(s) 696
Cfr13I GGNCC 4 cut(s) 211, 227, 280, 944
CseI GACGC 1 cut(s) 145
Csp6I GTAC 4 cut(s) 550, 700, 1057, 1168
CspAI ACCGGT 1 cut(s) 696
CviAII CATG 6 cut(s) 245, 314, 856, 948, 1133, 1307
CviQI GTAC 4 cut(s) 550, 700, 1057, 1168
DdeI CTNAG 7 cut(s) 217, 357, 403, 500, 514, 522, 1238
DpnI GATC 4 cut(s) 97, 401, 594, 1195
DpnII GATC 4 cut(s) 95, 399, 592, 1193
DrdI GACNNNNNNGTC 1 cut(s) 1071
DseDI GACNNNNNNGTC 1 cut(s) 1071
Eco130I CCWWGG 2 cut(s) 313, 816
Eco47I GGWCC 2 cut(s) 227, 944
Eco57I CTGAAG 3 cut(s) 162, 1182, 1289
EcoNI CCTNNNNNAGG 1 cut(s) 1115
EcoO109I RGGNCCY 1 cut(s) 227
EcoRI GAATTC 1 cut(s) 19
EcoRII CCWGG 3 cut(s) 763, 1330, 1386
EcoT14I CCWWGG 2 cut(s) 313, 816
ErhI CCWWGG 2 cut(s) 313, 816
FaeI CATG 6 cut(s) 248, 317, 859, 951, 1136, 1310
FaqI GGGAC 3 cut(s) 213, 430, 1325
FatI CATG 6 cut(s) 244, 313, 855, 947, 1132, 1306
FbaI TGATCA 1 cut(s) 592
FblI GTMKAC 1 cut(s) 1243
Fnu4HI GCNGC 5 cut(s) 144, 147, 174, 372, 885
FokI GGATG 3 cut(s) 929, 1286, 1390
Fsp4HI GCNGC 5 cut(s) 144, 147, 174, 372, 885
FspBI CTAG 1 cut(s) 1290
FspI TGCGCA 1 cut(s) 74
GlaI GCGC 2 cut(s) 74, 847
GluI GCNGC 5 cut(s) 144, 147, 174, 372, 885
GsuI CTGGAG 1 cut(s) 747
HaeIII GGCC 5 cut(s) 128, 213, 282, 967, 1110
HapII CCGG 1 cut(s) 697
HgaI GACGC 1 cut(s) 145
HhaI GCGC 2 cut(s) 75, 848
Hin1I GRCGYC 1 cut(s) 137
Hin1II CATG 6 cut(s) 248, 317, 859, 951, 1136, 1310
Hin6I GCGC 2 cut(s) 73, 846
HinP1I GCGC 2 cut(s) 73, 846
HindIII AAGCTT 2 cut(s) 799, 1342
HinfI GANTC 4 cut(s) 822, 935, 1096, 1210
HpaII CCGG 1 cut(s) 697
HphI GGTGA 2 cut(s) 263, 361
Hpy166II GTNNAC 2 cut(s) 1126, 1244
Hpy188I TCNGA 7 cut(s) 95, 135, 358, 517, 1228, 1256, 1269
Hpy188III TCNNGA 5 cut(s) 24, 115, 339, 397, 1200
Hpy8I GTNNAC 2 cut(s) 1126, 1244
Hpy99I CGWCG 1 cut(s) 139
HpyAV CCTTC 4 cut(s) 130, 570, 1111, 1264
HpyCH4III ACNGT 3 cut(s) 436, 875, 1167
HpyCH4IV ACGT 2 cut(s) 1177, 1314
HpyF10VI GCNNNNNNNGC 4 cut(s) 155, 170, 794, 890
HpyF3I CTNAG 7 cut(s) 217, 357, 403, 500, 514, 522, 1238
HpySE526I ACGT 2 cut(s) 1177, 1314
Hsp92I GRCGYC 1 cut(s) 137
Hsp92II CATG 6 cut(s) 248, 317, 859, 951, 1136, 1310
HspAI GCGC 2 cut(s) 73, 846
Ksp22I TGATCA 1 cut(s) 592
Kzo9I GATC 4 cut(s) 95, 399, 592, 1193
LmnI GCTCC 2 cut(s) 755, 1390
Lsp1109I GCAGC 3 cut(s) 130, 358, 871
LweI GCATC 3 cut(s) 447, 655, 1264
MaeI CTAG 1 cut(s) 1290
MaeII ACGT 2 cut(s) 1177, 1314
MaeIII GTNAC 7 cut(s) 297, 409, 439, 525, 631, 875, 1012
MalI GATC 4 cut(s) 97, 401, 594, 1195
MboI GATC 4 cut(s) 95, 399, 592, 1193
MboII GAAGA 2 cut(s) 1188, 1306
MfeI CAATTG 2 cut(s) 839, 1154
MflI RGATCY 2 cut(s) 399, 1193
MhlI GDGCHC 1 cut(s) 1371
MmeI TCCRAC 5 cut(s) 133, 158, 342, 567, 889
MnlI CCTC 9 cut(s) 118, 144, 161, 224, 232, 511, 984, 1074, 1258
MroXI GAANNNNTTC 1 cut(s) 826
MseI TTAA 7 cut(s) 303, 462, 578, 704, 738, 962, 1411
MslI CAYNNNNRTG 2 cut(s) 249, 1176
MspA1I CMGCKG 1 cut(s) 143
MspI CCGG 1 cut(s) 697
MspR9I CCNGG 3 cut(s) 765, 1332, 1388
MunI CAATTG 2 cut(s) 839, 1154
MvaI CCWGG 3 cut(s) 765, 1332, 1388
MwoI GCNNNNNNNGC 4 cut(s) 155, 170, 794, 890
NcoI CCATGG 1 cut(s) 313
NdeII GATC 4 cut(s) 95, 399, 592, 1193
NlaIII CATG 6 cut(s) 248, 317, 859, 951, 1136, 1310
NlaIV GGNNCC 4 cut(s) 172, 229, 695, 757
NmuCI GTSAC 4 cut(s) 409, 439, 631, 875
NsbI TGCGCA 1 cut(s) 74
NspI RCATGY 1 cut(s) 1136
OliI CACNNNNGTG 1 cut(s) 1176
PciI ACATGT 1 cut(s) 1132
PdmI GAANNNNTTC 1 cut(s) 826
PfeI GAWTC 4 cut(s) 822, 935, 1096, 1210
PflMI CCANNNNNTGG 1 cut(s) 1393
PfoI TCCNGGA 1 cut(s) 1386
PinAI ACCGGT 1 cut(s) 696
PkrI GCNGC 5 cut(s) 145, 148, 175, 373, 886
PpuMI RGGWCCY 1 cut(s) 227
PscI ACATGT 1 cut(s) 1132
PshAI GACNNNNGTC 1 cut(s) 1135
PshBI ATTAAT 1 cut(s) 738
Psp5II RGGWCCY 1 cut(s) 227
Psp6I CCWGG 3 cut(s) 763, 1330, 1386
PspGI CCWGG 3 cut(s) 763, 1330, 1386
PspN4I GGNNCC 4 cut(s) 172, 229, 695, 757
PspPI GGNCC 4 cut(s) 211, 227, 280, 944
PspPPI RGGWCCY 1 cut(s) 227
PstI CTGCAG 1 cut(s) 889
PstNI CAGNNNCTG 2 cut(s) 893, 1393
PsuI RGATCY 2 cut(s) 399, 1193
PvuII CAGCTG 1 cut(s) 143
RsaI GTAC 4 cut(s) 551, 701, 1058, 1169
RsaNI GTAC 4 cut(s) 550, 700, 1057, 1168
RseI CAYNNNNRTG 2 cut(s) 249, 1176
SaqAI TTAA 7 cut(s) 303, 462, 578, 704, 738, 962, 1411
SatI GCNGC 5 cut(s) 144, 147, 174, 372, 885
Sau3AI GATC 4 cut(s) 95, 399, 592, 1193
Sau96I GGNCC 4 cut(s) 211, 227, 280, 944
ScaI AGTACT 1 cut(s) 551
ScrFI CCNGG 3 cut(s) 765, 1332, 1388
SduI GDGCHC 1 cut(s) 1371
SfaNI GCATC 3 cut(s) 447, 655, 1264
SfcI CTRYAG 3 cut(s) 564, 570, 885
SinI GGWCC 2 cut(s) 227, 944
SmiMI CAYNNNNRTG 2 cut(s) 249, 1176
SsiI CCGC 2 cut(s) 146, 174
SspMI CTAG 1 cut(s) 1290
StyD4I CCNGG 3 cut(s) 763, 1330, 1386
StyI CCWWGG 2 cut(s) 313, 816
TaaI ACNGT 3 cut(s) 436, 875, 1167
TaiI ACGT 2 cut(s) 1180, 1317
TaqI TCGA 1 cut(s) 123
TatI WGTACW 2 cut(s) 549, 1056
TauI GCSGC 2 cut(s) 149, 176
TfiI GAWTC 4 cut(s) 822, 935, 1096, 1210
Tru1I TTAA 7 cut(s) 303, 462, 578, 704, 738, 962, 1411
Tru9I TTAA 7 cut(s) 303, 462, 578, 704, 738, 962, 1411
TscAI CASTG 2 cut(s) 414, 636
TseFI GTSAC 4 cut(s) 409, 439, 631, 875
TseI GCWGC 3 cut(s) 143, 371, 884
Tsp45I GTSAC 4 cut(s) 409, 439, 631, 875
TspDTI ATGAA 6 cut(s) 17, 641, 723, 747, 866, 1365
TspGWI ACGGA 1 cut(s) 1143
TspRI CASTG 2 cut(s) 414, 636
Van91I CCANNNNNTGG 1 cut(s) 1393
VpaK11BI GGWCC 2 cut(s) 227, 944
VspI ATTAAT 1 cut(s) 738
XagI CCTNNNNNAGG 1 cut(s) 1115
XapI RAATTY 5 cut(s) 19, 378, 538, 1352, 1360
XceI RCATGY 1 cut(s) 1136
XmiI GTMKAC 1 cut(s) 1243
XmnI GAANNNNTTC 1 cut(s) 826
XspI CTAG 1 cut(s) 1290
ZrmI AGTACT 1 cut(s) 551
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.