Rw3G021240

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0016410
Physical Location & Seq
Reverse (-)
25548498 .. 25554258
5761 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G021240.1

Sequence Viewer

Length: 1257 bp
ATGAAGTTGCAGTCTTTGAATTCGGGATACGAAATGCGAACTCTCATTGCCAAACCCTATGGCCCAGCTGCGGCGAGGCTTGCTCTTGCCAGAGGTGCCGCTTCAGTTTTAGCATTTGACCACAACCCCACTTTGGGCCTCTTAGAGCTTACTAATTTTGGGCTGGGAGATGTTAAACAGCAACAAGCGTGGCCTGGAAAACAGGTGATGTCTGAGTTGGATTTTGCTGCTGAAATTCTCCCAAAATGTATCAAGATCTTAGCAGTGACAGGGACTAATGGAAAATCAACTGTGGTCACTTTTGCTGGACAGATGCTTAATCATTTGGGTATCAACACATTTTTGGGGGGTAATCTTGGAAATCCACTCTCAGAGGCTCAGTTACTAAATGGAAATTCCAACAAGTACTTCTGCCCTTCTGTAGCTGTAGTGTTAAACCTTACACCTGATCATTTAGAAAGGCACAGGACAATGAGAGACTATGCAGTGACTAAATGCCAGTTATTTCATCAAATGAGTGATGCCAATCTTGGGCTTCTTTGTTTTGGGAACCGGTACTTAAATGAAGCAGTTATGGGAAGCTTGAATGAAATTAATCTTGCTTGGATAGGAGCCACTCCAGGCGTAAGAATTGATATGGAAGCAATAATTGCAAGCTTTGAAGTGCCTGCCTTGGGAATCAATTCTCAACTCCAATTGGGCGCAATGAACATGATTGGAACACAGAACTGTCACAATGCTGCAGTTGCTGTCTTATCTGTTGTTGGGCTGGATGTAGGACTTGATGTTGAAGCCATTGGTCCATGTATAGAAAAGTTAAGGCCACCACCTCATCGTATGCAAATTGTATGCAAGGATATGCAAGGGGTAACTTGGGTTGATGACAGCAAGGCAACAAATGTAGAAGCTATGTACATAGGACTAATGGGTCTAAAGAGGCAAAAGTCTGTGATTCTACTTGGTGGCCTTGCGAAGGTTGTGGACGGACATGTGTCTAATGGTTTTGAACAATTGATAGAACAGTACCACAGACGTGTAATCACTTTTGGATCTTCAGGACTGCTGATTCAAAGGACATTATCCGATACAGAAAATCTGAAGGATGCTGTCAGCTTGGCTAGGAAGATGGCAGAACATGGGGACGTTATTTTACCAAGTCCAGGTTGTGCAAGCTTTGATGAATTTAGAAATTTTGAGCACAGGGGGTGGTTTTCCAGGAGCTGGCTTTTGCATCATCTTAAGTTCGGGTTCACTTGA
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

418

Amino Acids

45.55

Weight (kDa)

7.2

Isoelectric Point (pI)

29.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Mur_ligase_M PF08245 132 - 252 4.3e-11 Mur ligase middle domain
Mur_ligase_C PF02875 278 - 386 2.8e-06 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) 927
AccB1I GGYRCC 1 cut(s) 95
AccB7I CCANNNNNTGG 1 cut(s) 1221
AciI CCGC 2 cut(s) 71, 99
AclWI GGATC 1 cut(s) 1057
AcsI RAATTY 5 cut(s) 19, 234, 394, 1181, 1189
AcuI CTGAAG 3 cut(s) 87, 1038, 1118
AfaI GTAC 4 cut(s) 407, 557, 914, 1025
AfiI CCNNNNNNNGG 8 cut(s) 70, 133, 134, 531, 674, 973, 1160, 1221
AflII CTTAAG 1 cut(s) 1238
AflIII ACRYGT 2 cut(s) 988, 1033
AgeI ACCGGT 1 cut(s) 552
AgsI TTSAA 6 cut(s) 19, 586, 662, 791, 1007, 1070
AjiI CACGTC 1 cut(s) 1034
AjnI CCWGG 4 cut(s) 193, 619, 1159, 1214
AjuI GAANNNNNNNTTGG 2 cut(s) 392, 424
AleI CACNNNNGTG 1 cut(s) 1032
AluBI AGCT 9 cut(s) 68, 148, 425, 582, 657, 908, 1113, 1173, 1221
AluI AGCT 9 cut(s) 68, 148, 425, 582, 657, 908, 1113, 1173, 1221
Alw21I GWGCWC 1 cut(s) 1200
Alw26I GTCTC 1 cut(s) 471
AlwI GGATC 1 cut(s) 1057
AlwNI CAGNNNCTG 2 cut(s) 749, 1221
AoxI GGCC 5 cut(s) 61, 136, 191, 821, 964
ApeKI GCWGC 3 cut(s) 68, 227, 740
ApoI RAATTY 5 cut(s) 19, 234, 394, 1181, 1189
AseI ATTAAT 1 cut(s) 594
AsiGI ACCGGT 1 cut(s) 552
Asp700I GAANNNNTTC 1 cut(s) 682
AspLEI GCGC 1 cut(s) 704
AspS9I GGNCC 3 cut(s) 62, 136, 800
AsuHPI GGTGA 1 cut(s) 217
AvaII GGWCC 1 cut(s) 800
BanI GGYRCC 1 cut(s) 95
Bbv12I GWGCWC 1 cut(s) 1200
BbvI GCAGC 3 cut(s) 55, 214, 727
BccI CCATC 1 cut(s) 1120
BciT130I CCWGG 4 cut(s) 195, 621, 1161, 1216
BciVI GTATCC 1 cut(s) 20
BclI TGATCA 1 cut(s) 448
BcoDI GTCTC 1 cut(s) 471
BfaI CTAG 1 cut(s) 1119
BfmI CTRYAG 3 cut(s) 420, 426, 741
BfrI CTTAAG 1 cut(s) 1238
BfuI GTATCC 1 cut(s) 20
BglII AGATCT 1 cut(s) 255
BisI GCNGC 5 cut(s) 69, 72, 99, 228, 741
BlsI GCNGC 5 cut(s) 70, 73, 100, 229, 742
BmcAI AGTACT 1 cut(s) 407
Bme1390I CCNGG 4 cut(s) 195, 621, 1161, 1216
Bme18I GGWCC 1 cut(s) 800
BmgBI CACGTC 1 cut(s) 1034
BmgT120I GGNCC 3 cut(s) 62, 136, 800
BmiI GGNNCC 3 cut(s) 97, 551, 613
BmrFI CCNGG 4 cut(s) 195, 621, 1161, 1216
BmsI GCATC 4 cut(s) 303, 511, 1093, 1240
BoxI GACNNNNGTC 1 cut(s) 991
BplI GAGNNNNNCTC 2 cut(s) 67, 99
BpmI CTGGAG 1 cut(s) 603
BsaBI GATNNNNATC 1 cut(s) 525
BsaJI CCNNGG 1 cut(s) 672
BsaWI WCCGGW 1 cut(s) 552
Bsc4I CCNNNNNNNGG 8 cut(s) 70, 133, 134, 531, 674, 973, 1160, 1221
Bse118I RCCGGY 1 cut(s) 552
Bse1I ACTGG 1 cut(s) 499
Bse3DI GCAATG 2 cut(s) 45, 711
Bse8I GATNNNNATC 1 cut(s) 525
BseBI CCWGG 4 cut(s) 195, 621, 1161, 1216
BseDI CCNNGG 1 cut(s) 672
BseGI GGATG 2 cut(s) 778, 1108
BseJI GATNNNNATC 1 cut(s) 525
BseLI CCNNNNNNNGG 8 cut(s) 70, 133, 134, 531, 674, 973, 1160, 1221
BseMI GCAATG 2 cut(s) 45, 711
BseMII CTCAG 3 cut(s) 204, 384, 392
BseNI ACTGG 1 cut(s) 499
BseXI GCAGC 3 cut(s) 55, 214, 727
BseYI CCCAGC 2 cut(s) 64, 163
BshFI GGCC 5 cut(s) 63, 138, 193, 823, 966
BshNI GGYRCC 1 cut(s) 95
BshTI ACCGGT 1 cut(s) 552
BsiHKAI GWGCWC 1 cut(s) 1200
BsiSI CCGG 1 cut(s) 553
BslFI GGGAC 2 cut(s) 286, 1154
BslI CCNNNNNNNGG 8 cut(s) 70, 133, 134, 531, 674, 973, 1160, 1221
BsmAI GTCTC 1 cut(s) 471
BsmFI GGGAC 2 cut(s) 286, 1154
BsnI GGCC 5 cut(s) 63, 138, 193, 823, 966
Bsp1286I GDGCHC 1 cut(s) 1200
Bsp1407I TGTACA 1 cut(s) 912
Bsp143I GATC 3 cut(s) 255, 448, 1049
BspACI CCGC 2 cut(s) 71, 99
BspANI GGCC 5 cut(s) 63, 138, 193, 823, 966
BspCNI CTCAG 3 cut(s) 205, 383, 391
BspLI GGNNCC 3 cut(s) 97, 551, 613
BspMAI CTGCAG 1 cut(s) 745
BspPI GGATC 1 cut(s) 1057
BspT107I GGYRCC 1 cut(s) 95
BspTI CTTAAG 1 cut(s) 1238
BsrDI GCAATG 2 cut(s) 45, 711
BsrFI RCCGGY 1 cut(s) 552
BsrGI TGTACA 1 cut(s) 912
BsrI ACTGG 1 cut(s) 499
BssAI RCCGGY 1 cut(s) 552
BssECI CCNNGG 1 cut(s) 672
BssMI GATC 3 cut(s) 255, 448, 1049
BssT1I CCWWGG 1 cut(s) 672
Bst2UI CCWGG 4 cut(s) 195, 621, 1161, 1216
Bst4CI ACNGT 3 cut(s) 292, 731, 1023
BstAFI CTTAAG 1 cut(s) 1238
BstAPI GCANNNNNTGC 1 cut(s) 650
BstAUI TGTACA 1 cut(s) 912
BstC8I GCNNGC 5 cut(s) 81, 655, 669, 1171, 1223
BstDEI CTNAG 5 cut(s) 142, 213, 259, 370, 378
BstENI CCTNNNNNAGG 1 cut(s) 971
BstF5I GGATG 2 cut(s) 778, 1108
BstHHI GCGC 1 cut(s) 704
BstKTI GATC 3 cut(s) 258, 451, 1052
BstMAI GTCTC 1 cut(s) 471
BstMBI GATC 3 cut(s) 255, 448, 1049
BstMWI GCNNNNNNNGC 4 cut(s) 80, 95, 650, 746
BstNI CCWGG 4 cut(s) 195, 621, 1161, 1216
BstNSI RCATGY 1 cut(s) 992
BstPAI GACNNNNGTC 1 cut(s) 991
BstSCI CCNGG 4 cut(s) 193, 619, 1159, 1214
BstSFI CTRYAG 3 cut(s) 420, 426, 741
BstV1I GCAGC 3 cut(s) 55, 214, 727
BstX2I RGATCY 2 cut(s) 255, 1049
BstYI RGATCY 2 cut(s) 255, 1049
BsuI GTATCC 1 cut(s) 20
BsuRI GGCC 5 cut(s) 63, 138, 193, 823, 966
BtrI CACGTC 1 cut(s) 1034
BtsCI GGATG 2 cut(s) 778, 1108
BtsI GCAGTG 2 cut(s) 270, 492
BtsIMutI CAGTG 2 cut(s) 270, 492
Cac8I GCNNGC 5 cut(s) 81, 655, 669, 1171, 1223
CaiI CAGNNNCTG 2 cut(s) 749, 1221
CfoI GCGC 1 cut(s) 704
Cfr10I RCCGGY 1 cut(s) 552
Cfr13I GGNCC 3 cut(s) 62, 136, 800
Csp6I GTAC 4 cut(s) 406, 556, 913, 1024
CspAI ACCGGT 1 cut(s) 552
CspCI CAANNNNNGTGG 2 cut(s) 170, 205
CviAII CATG 4 cut(s) 712, 804, 989, 1136
CviQI GTAC 4 cut(s) 406, 556, 913, 1024
DdeI CTNAG 5 cut(s) 142, 213, 259, 370, 378
DpnI GATC 3 cut(s) 257, 450, 1051
DpnII GATC 3 cut(s) 255, 448, 1049
DrdI GACNNNNNNGTC 1 cut(s) 927
DseDI GACNNNNNNGTC 1 cut(s) 927
Eco130I CCWWGG 1 cut(s) 672
Eco47I GGWCC 1 cut(s) 800
Eco57I CTGAAG 3 cut(s) 87, 1038, 1118
EcoNI CCTNNNNNAGG 1 cut(s) 971
EcoRI GAATTC 1 cut(s) 19
EcoRII CCWGG 4 cut(s) 193, 619, 1159, 1214
EcoT14I CCWWGG 1 cut(s) 672
ErhI CCWWGG 1 cut(s) 672
FaeI CATG 4 cut(s) 715, 807, 992, 1139
FaqI GGGAC 2 cut(s) 286, 1154
FatI CATG 4 cut(s) 711, 803, 988, 1135
FbaI TGATCA 1 cut(s) 448
Fnu4HI GCNGC 5 cut(s) 69, 72, 99, 228, 741
FokI GGATG 2 cut(s) 785, 1115
Fsp4HI GCNGC 5 cut(s) 69, 72, 99, 228, 741
FspBI CTAG 1 cut(s) 1119
GlaI GCGC 1 cut(s) 703
GluI GCNGC 5 cut(s) 69, 72, 99, 228, 741
GsaI CCCAGC 2 cut(s) 68, 167
GsuI CTGGAG 1 cut(s) 603
HaeIII GGCC 5 cut(s) 63, 138, 193, 823, 966
HapII CCGG 1 cut(s) 553
HhaI GCGC 1 cut(s) 704
Hin1II CATG 4 cut(s) 715, 807, 992, 1139
Hin6I GCGC 1 cut(s) 702
HinP1I GCGC 1 cut(s) 702
HindIII AAGCTT 3 cut(s) 580, 655, 1171
HinfI GANTC 3 cut(s) 678, 952, 1066
HpaII CCGG 1 cut(s) 553
HphI GGTGA 1 cut(s) 217
Hpy166II GTNNAC 2 cut(s) 982, 1251
Hpy188I TCNGA 4 cut(s) 214, 373, 1084, 1098
Hpy188III TCNNGA 3 cut(s) 24, 253, 1056
Hpy8I GTNNAC 2 cut(s) 982, 1251
HpyAV CCTTC 3 cut(s) 426, 967, 1093
HpyCH4III ACNGT 3 cut(s) 292, 731, 1023
HpyCH4IV ACGT 2 cut(s) 1033, 1143
HpyCH4V TGCA 9 cut(s) 10, 485, 653, 743, 841, 852, 862, 1169, 1231
HpyF10VI GCNNNNNNNGC 4 cut(s) 80, 95, 650, 746
HpyF3I CTNAG 5 cut(s) 142, 213, 259, 370, 378
HpySE526I ACGT 2 cut(s) 1033, 1143
Hsp92II CATG 4 cut(s) 715, 807, 992, 1139
HspAI GCGC 1 cut(s) 702
Ksp22I TGATCA 1 cut(s) 448
Kzo9I GATC 3 cut(s) 255, 448, 1049
LmnI GCTCC 2 cut(s) 611, 1218
Lsp1109I GCAGC 3 cut(s) 55, 214, 727
LweI GCATC 4 cut(s) 303, 511, 1093, 1240
MaeI CTAG 1 cut(s) 1119
MaeII ACGT 2 cut(s) 1033, 1143
MaeIII GTNAC 6 cut(s) 265, 295, 381, 487, 731, 868
MalI GATC 3 cut(s) 257, 450, 1051
MboI GATC 3 cut(s) 255, 448, 1049
MboII GAAGA 2 cut(s) 1044, 1135
MfeI CAATTG 2 cut(s) 695, 1010
MflI RGATCY 2 cut(s) 255, 1049
MhlI GDGCHC 1 cut(s) 1200
MmeI TCCRAC 2 cut(s) 198, 423
MnlI CCTC 6 cut(s) 69, 86, 149, 367, 840, 930
MroXI GAANNNNTTC 1 cut(s) 682
MseI TTAA 7 cut(s) 174, 318, 434, 560, 594, 818, 1239
MslI CAYNNNNRTG 1 cut(s) 1032
MspA1I CMGCKG 1 cut(s) 68
MspCI CTTAAG 1 cut(s) 1238
MspI CCGG 1 cut(s) 553
MspR9I CCNGG 4 cut(s) 195, 621, 1161, 1216
MunI CAATTG 2 cut(s) 695, 1010
MvaI CCWGG 4 cut(s) 195, 621, 1161, 1216
MwoI GCNNNNNNNGC 4 cut(s) 80, 95, 650, 746
NdeII GATC 3 cut(s) 255, 448, 1049
NlaIII CATG 4 cut(s) 715, 807, 992, 1139
NlaIV GGNNCC 3 cut(s) 97, 551, 613
NmuCI GTSAC 4 cut(s) 265, 295, 487, 731
NspI RCATGY 1 cut(s) 992
OliI CACNNNNGTG 1 cut(s) 1032
PciI ACATGT 1 cut(s) 988
PdmI GAANNNNTTC 1 cut(s) 682
PfeI GAWTC 3 cut(s) 678, 952, 1066
PflMI CCANNNNNTGG 1 cut(s) 1221
PfoI TCCNGGA 1 cut(s) 1214
PinAI ACCGGT 1 cut(s) 552
PkrI GCNGC 5 cut(s) 70, 73, 100, 229, 742
PscI ACATGT 1 cut(s) 988
PshAI GACNNNNGTC 1 cut(s) 991
PshBI ATTAAT 1 cut(s) 594
Psp6I CCWGG 4 cut(s) 193, 619, 1159, 1214
PspFI CCCAGC 2 cut(s) 64, 163
PspGI CCWGG 4 cut(s) 193, 619, 1159, 1214
PspN4I GGNNCC 3 cut(s) 97, 551, 613
PspPI GGNCC 3 cut(s) 62, 136, 800
PstI CTGCAG 1 cut(s) 745
PstNI CAGNNNCTG 2 cut(s) 749, 1221
PsuI RGATCY 2 cut(s) 255, 1049
PvuII CAGCTG 1 cut(s) 68
RsaI GTAC 4 cut(s) 407, 557, 914, 1025
RsaNI GTAC 4 cut(s) 406, 556, 913, 1024
RseI CAYNNNNRTG 1 cut(s) 1032
SaqAI TTAA 7 cut(s) 174, 318, 434, 560, 594, 818, 1239
SatI GCNGC 5 cut(s) 69, 72, 99, 228, 741
Sau3AI GATC 3 cut(s) 255, 448, 1049
Sau96I GGNCC 3 cut(s) 62, 136, 800
ScaI AGTACT 1 cut(s) 407
ScrFI CCNGG 4 cut(s) 195, 621, 1161, 1216
SduI GDGCHC 1 cut(s) 1200
SfaNI GCATC 4 cut(s) 303, 511, 1093, 1240
SfcI CTRYAG 3 cut(s) 420, 426, 741
SinI GGWCC 1 cut(s) 800
SmiMI CAYNNNNRTG 1 cut(s) 1032
SmlI CTYRAG 1 cut(s) 1238
SmoI CTYRAG 1 cut(s) 1238
SsiI CCGC 2 cut(s) 71, 99
SspMI CTAG 1 cut(s) 1119
StyD4I CCNGG 4 cut(s) 193, 619, 1159, 1214
StyI CCWWGG 1 cut(s) 672
TaaI ACNGT 3 cut(s) 292, 731, 1023
TaiI ACGT 2 cut(s) 1036, 1146
TatI WGTACW 2 cut(s) 405, 912
TauI GCSGC 2 cut(s) 74, 101
TfiI GAWTC 3 cut(s) 678, 952, 1066
Tru1I TTAA 7 cut(s) 174, 318, 434, 560, 594, 818, 1239
Tru9I TTAA 7 cut(s) 174, 318, 434, 560, 594, 818, 1239
TscAI CASTG 2 cut(s) 270, 492
TseFI GTSAC 4 cut(s) 265, 295, 487, 731
TseI GCWGC 3 cut(s) 68, 227, 740
Tsp45I GTSAC 4 cut(s) 265, 295, 487, 731
TspDTI ATGAA 6 cut(s) 17, 497, 579, 603, 722, 1194
TspGWI ACGGA 1 cut(s) 999
TspRI CASTG 2 cut(s) 270, 492
Van91I CCANNNNNTGG 1 cut(s) 1221
Vha464I CTTAAG 1 cut(s) 1238
VpaK11BI GGWCC 1 cut(s) 800
VspI ATTAAT 1 cut(s) 594
XagI CCTNNNNNAGG 1 cut(s) 971
XapI RAATTY 5 cut(s) 19, 234, 394, 1181, 1189
XceI RCATGY 1 cut(s) 992
XmnI GAANNNNTTC 1 cut(s) 682
XspI CTAG 1 cut(s) 1119
ZrmI AGTACT 1 cut(s) 407
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.