Rh7CG307000

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7C
OG0013520
Physical Location & Seq
Reverse (-)
32190127 .. 32207651
17525 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG307000.1

Sequence Viewer

Length: 1440 bp
ATGTACAAGAAACCCACGTTAGCTCGCTTTCACCAACTTGTCAAAACCCCATTTCAGCAAACACCTTGTATGTGGGTCTCAATAAAGCACAGACACAGCGGAGGAAGAAGACCCAAGAAGAGAGTCTACCACAGAGACCATGACCTTGACAAAGCCATGGACTTGCGGAAGAAGCCTGCCTTGATTTTACAGCTCAAATCCATTATTCAGTCACACAAGCACCAATCTTTACTTCTCAGGGACCTCGAGAAAGAAGTTGGGTTTGTTCACAAGTGGAATTTCATGGCTGTTATAGAGAAAAATCCTTCAATTTTCTATGTTGGTGGTGGCAATAGAATGCCCCCTTTTGTTCAGCTCACTGAAAAAGCTGAAAGGGTTGCTAGGGAAGAAGCTGAAGCTAAGCAGTTGATGGAACCCATTTTGGTTAAGAATCTAAGGAAATTGTTAATGTTGTCTGTTGATTGCAGGGTTCCACTTGAATCCATTGATTTCGTTCAATGTGAATTGGGTTTGCCGGATGATTTCAAGAAGTCATTGATTCCAAAGTACCCTGAATTTTTTTCAGTTAAGGATGTAAGTGGAAGAGCCTATCTTCATTTGGAGAATTGGGATTCTTCCCTAGCAGTCACAGCTCGTGAGGAACGATTAGCTAGTGATGGGATTGTGGCCTCTGATGGAGTGGGAAAGAATTTTAGAATATCGAAAGATGGTAATTTTCGAGGTCCACAAGCCTTTACAATGAGGTTTCCTGCTGGTTTTAGGCCAAATGCAAGTTATCTTGAGCAACTTGAAAAGTGGCAGAAACTCAAATTCCCTTCTCCGTATTTGAATGCAAGGAGGTTCGACATTGCTGATACTAAAGCAAGGAAGCGAGTGGTGGCAGTGCTTCATGAGCTCCTCAGTTTGACTATGGAGAAGAGGATGACATCTGCTCAAATGGAGGCATTTCATTCAGAGTATTTCTTACCTTCCAAATTGCTGCTTTGTTTGATAAAGCATAATGGTATCTTTTACATAACTAATAAAGGTGCAAGGAGTACCGTTTTTCTTAAAGAAGCTTATGATGGGCCATATTTGATGAACAAATGTCCCATCTTGTTATTCAATGATAAATTTGTAGGACTTAGTGGTAGGAGAGAGATCAATTCATGTTCTATGCTTTGGCAGTTTAAGAAAAACGTTGATAAAGAAAACCTAAGTACACGATTTCTTTTATATGAAAAGCTTACTATTCCGAGCAAGCATATAACAACACCTATTCAAGGCTTGGTGACAATCCATGCTCATGGGATGTACCTTCATGGCCACAAGAAGAACCGTATTCCTATAGTTTGCAATGGAGACATTGCAGTGACTTCTCATGGTTCAGCACTGAAAGTTACGAAGCTACACAATGGCCACGCCAAGCTGGCAACATTCCATCATCCTATGAAATCTTGA
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
PORR

Protein Analysis

479

Amino Acids

55.07

Weight (kDa)

9.84

Isoelectric Point (pI)

36.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 44 - 378 9.3e-103 Plant organelle RNA recognition 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: OG0013520)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G79120 AT1G79120
fragaria_vesca FvH4_5g24801
malus_domestica MD05G1220600.v1.1 MD10G1203000.v1.1
prunus_persica Prupe.4G139300_v2.0.a1
pyrus_communis pycom05g20410 pycom10g17360
rosa_chinensis RchiOBHm_Chr7g0215141
rosa_laevigata RLG00000002690
rosa_multiflora Rmu_sc0005476.1_g000003
rosa_roxburghii Rroxscaffold_3G00244590
rosa_rugosa Rorug07G0150200
rosa_samantha Rh7BG278800 Rh7CG307000 Rh7DG290600 Rh7DG397500
rosa_wichuraiana Rw7G024490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 126
AciI CCGC 2 cut(s) 99, 166
AclI AACGTT 1 cut(s) 1179
AcoI YGGCCR 2 cut(s) 1303, 1396
AcsI RAATTY 5 cut(s) 277, 554, 688, 809, 1112
AcuI CTGAAG 1 cut(s) 414
AfaI GTAC 5 cut(s) 5, 548, 1039, 1201, 1295
AfiI CCNNNNNNNGG 1 cut(s) 1262
AgsI TTSAA 8 cut(s) 309, 479, 497, 526, 791, 829, 1105, 1262
AjuI GAANNNNNNNTTGG 2 cut(s) 216, 248
Alw21I GWGCWC 1 cut(s) 897
Alw26I GTCTC 3 cut(s) 82, 129, 1335
Ama87I CYCGRG 1 cut(s) 245
AoxI GGCC 5 cut(s) 666, 761, 1067, 1303, 1396
ApeKI GCWGC 1 cut(s) 979
ApoI RAATTY 5 cut(s) 277, 554, 688, 809, 1112
AspS9I GGNCC 3 cut(s) 241, 722, 1067
AsuHPI GGTGA 2 cut(s) 23, 1282
AvaI CYCGRG 1 cut(s) 245
AvaII GGWCC 2 cut(s) 241, 722
BalI TGGCCA 2 cut(s) 1305, 1398
BanII GRGCYC 1 cut(s) 897
BarI GAAGNNNNNNTAC 2 cut(s) 110, 142
BauI CACGAG 1 cut(s) 633
BbsI GAAGAC 1 cut(s) 115
Bbv12I GWGCWC 1 cut(s) 897
BbvI GCAGC 1 cut(s) 966
BccI CCATC 7 cut(s) 403, 650, 668, 701, 1058, 1100, 1428
BcoDI GTCTC 3 cut(s) 82, 129, 1335
BfaI CTAG 3 cut(s) 381, 620, 651
BfmI CTRYAG 1 cut(s) 1326
BglI GCCNNNNNGGC 1 cut(s) 1409
BisI GCNGC 1 cut(s) 980
BlpI GCTNAGC 1 cut(s) 399
BlsI GCNGC 1 cut(s) 981
Bme18I GGWCC 2 cut(s) 241, 722
BmeT110I CYCGRG 1 cut(s) 245
BmgT120I GGNCC 3 cut(s) 241, 722, 1067
BmiI GGNNCC 3 cut(s) 242, 414, 471
BpiI GAAGAC 1 cut(s) 115
Bpu1102I GCTNAGC 1 cut(s) 399
BpuEI CTTGAG 1 cut(s) 800
BsaI GGTCTC 2 cut(s) 82, 129
BsaJI CCNNGG 1 cut(s) 156
Bsc4I CCNNNNNNNGG 1 cut(s) 1262
Bse3DI GCAATG 3 cut(s) 846, 1342, 1344
BseDI CCNNGG 1 cut(s) 156
BseGI GGATG 5 cut(s) 523, 577, 927, 1296, 1423
BseLI CCNNNNNNNGG 1 cut(s) 1262
BseMI GCAATG 3 cut(s) 846, 1342, 1344
BseMII CTCAG 2 cut(s) 250, 913
BseRI GAGGAG 1 cut(s) 887
BseXI GCAGC 1 cut(s) 966
BshFI GGCC 5 cut(s) 668, 763, 1069, 1305, 1398
BsiHKAI GWGCWC 1 cut(s) 897
BsiHKCI CYCGRG 1 cut(s) 245
BsiSI CCGG 1 cut(s) 515
BslFI GGGAC 2 cut(s) 254, 1074
BslI CCNNNNNNNGG 1 cut(s) 1262
BsmAI GTCTC 3 cut(s) 82, 129, 1335
BsmFI GGGAC 2 cut(s) 254, 1074
BsmI GAATGC 2 cut(s) 342, 835
BsnI GGCC 5 cut(s) 668, 763, 1069, 1305, 1398
Bso31I GGTCTC 2 cut(s) 82, 129
BsoBI CYCGRG 1 cut(s) 245
Bsp1286I GDGCHC 1 cut(s) 897
Bsp1407I TGTACA 1 cut(s) 3
Bsp143I GATC 1 cut(s) 1140
Bsp1720I GCTNAGC 1 cut(s) 399
Bsp19I CCATGG 1 cut(s) 156
BspACI CCGC 2 cut(s) 99, 166
BspANI GGCC 5 cut(s) 668, 763, 1069, 1305, 1398
BspCNI CTCAG 2 cut(s) 249, 912
BspHI TCATGA 1 cut(s) 889
BspLI GGNNCC 3 cut(s) 242, 414, 471
BspQI GCTCTTC 1 cut(s) 577
BspTNI GGTCTC 2 cut(s) 82, 129
BsrDI GCAATG 3 cut(s) 846, 1342, 1344
BsrGI TGTACA 1 cut(s) 3
BssECI CCNNGG 1 cut(s) 156
BssMI GATC 1 cut(s) 1140
BssSI CACGAG 1 cut(s) 633
BssT1I CCWWGG 1 cut(s) 156
Bst2BI CACGAG 1 cut(s) 633
Bst4CI ACNGT 2 cut(s) 1042, 1319
Bst6I CTCTTC 3 cut(s) 113, 577, 911
BstAUI TGTACA 1 cut(s) 3
BstC8I GCNNGC 4 cut(s) 25, 177, 1241, 1410
BstDEI CTNAG 6 cut(s) 236, 399, 434, 899, 1124, 1196
BstDSI CCRYGG 1 cut(s) 156
BstENI CCTNNNNNAGG 1 cut(s) 1260
BstF5I GGATG 5 cut(s) 523, 577, 927, 1296, 1423
BstKTI GATC 1 cut(s) 1143
BstMAI GTCTC 3 cut(s) 82, 129, 1335
BstMBI GATC 1 cut(s) 1140
BstMWI GCNNNNNNNGC 4 cut(s) 172, 629, 892, 1409
BstSFI CTRYAG 1 cut(s) 1326
BstV1I GCAGC 1 cut(s) 966
BstV2I GAAGAC 1 cut(s) 115
BstXI CCANNNNNNTGG 1 cut(s) 1286
BsuRI GGCC 5 cut(s) 668, 763, 1069, 1305, 1398
BtgI CCRYGG 1 cut(s) 156
BtsCI GGATG 5 cut(s) 523, 577, 927, 1296, 1423
BtsI GCAGTG 2 cut(s) 888, 1356
BtsIMutI CAGTG 4 cut(s) 357, 888, 1356, 1370
Cac8I GCNNGC 4 cut(s) 25, 177, 1241, 1410
CciI TCATGA 1 cut(s) 889
Cfr13I GGNCC 3 cut(s) 241, 722, 1067
Csp6I GTAC 5 cut(s) 4, 547, 1038, 1200, 1294
CviAII CATG 9 cut(s) 140, 157, 283, 890, 1149, 1280, 1286, 1301, 1361
CviQI GTAC 5 cut(s) 4, 547, 1038, 1200, 1294
DdeI CTNAG 6 cut(s) 236, 399, 434, 899, 1124, 1196
DpnI GATC 1 cut(s) 1142
DpnII GATC 1 cut(s) 1140
EaeI YGGCCR 2 cut(s) 1303, 1396
Eam1104I CTCTTC 3 cut(s) 113, 577, 911
EarI CTCTTC 3 cut(s) 113, 577, 911
Ecl136II GAGCTC 1 cut(s) 895
Eco130I CCWWGG 1 cut(s) 156
Eco24I GRGCYC 1 cut(s) 897
Eco31I GGTCTC 2 cut(s) 82, 129
Eco47I GGWCC 2 cut(s) 241, 722
Eco53kI GAGCTC 1 cut(s) 895
Eco57I CTGAAG 1 cut(s) 414
Eco88I CYCGRG 1 cut(s) 245
EcoICRI GAGCTC 1 cut(s) 895
EcoNI CCTNNNNNAGG 1 cut(s) 1260
EcoO109I RGGNCCY 1 cut(s) 241
EcoT14I CCWWGG 1 cut(s) 156
EcoT38I GRGCYC 1 cut(s) 897
ErhI CCWWGG 1 cut(s) 156
FaeI CATG 9 cut(s) 143, 160, 286, 893, 1152, 1283, 1289, 1304, 1364
FalI AAGNNNNNCTT 2 cut(s) 164, 196
FaqI GGGAC 2 cut(s) 254, 1074
FatI CATG 9 cut(s) 139, 156, 282, 889, 1148, 1279, 1285, 1300, 1360
FblI GTMKAC 1 cut(s) 126
Fnu4HI GCNGC 1 cut(s) 980
FokI GGATG 5 cut(s) 530, 584, 934, 1303, 1410
FriOI GRGCYC 1 cut(s) 897
Fsp4HI GCNGC 1 cut(s) 980
FspBI CTAG 3 cut(s) 381, 620, 651
GluI GCNGC 1 cut(s) 980
HaeIII GGCC 5 cut(s) 668, 763, 1069, 1305, 1398
HapII CCGG 1 cut(s) 515
Hin1II CATG 9 cut(s) 143, 160, 286, 893, 1152, 1283, 1289, 1304, 1364
HindIII AAGCTT 2 cut(s) 1056, 1223
HinfI GANTC 5 cut(s) 123, 430, 479, 538, 611
HpaII CCGG 1 cut(s) 515
HphI GGTGA 2 cut(s) 23, 1282
Hpy166II GTNNAC 4 cut(s) 127, 268, 725, 1202
Hpy188I TCNGA 3 cut(s) 673, 955, 1236
Hpy188III TCNNGA 6 cut(s) 247, 526, 635, 779, 890, 1437
Hpy8I GTNNAC 4 cut(s) 127, 268, 725, 1202
HpyAV CCTTC 4 cut(s) 315, 825, 978, 1307
HpyCH4III ACNGT 2 cut(s) 1042, 1319
HpyCH4IV ACGT 2 cut(s) 17, 1179
HpyCH4V TGCA 6 cut(s) 465, 770, 833, 1031, 1335, 1349
HpyF10VI GCNNNNNNNGC 4 cut(s) 172, 629, 892, 1409
HpyF3I CTNAG 6 cut(s) 236, 399, 434, 899, 1124, 1196
HpySE526I ACGT 2 cut(s) 17, 1179
Hsp92II CATG 9 cut(s) 143, 160, 286, 893, 1152, 1283, 1289, 1304, 1364
Kzo9I GATC 1 cut(s) 1140
LguI GCTCTTC 1 cut(s) 577
LmnI GCTCC 1 cut(s) 900
LpnPI CCDG 8 cut(s) 189, 223, 451, 528, 564, 738, 762, 1394
Lsp1109I GCAGC 1 cut(s) 966
MaeI CTAG 3 cut(s) 381, 620, 651
MaeII ACGT 2 cut(s) 17, 1179
MaeIII GTNAC 5 cut(s) 210, 625, 1270, 1351, 1378
MalI GATC 1 cut(s) 1142
MboI GATC 1 cut(s) 1140
MhlI GDGCHC 1 cut(s) 897
MlsI TGGCCA 2 cut(s) 1305, 1398
MluNI TGGCCA 2 cut(s) 1305, 1398
MlyI GAGTC 1 cut(s) 132
Mox20I TGGCCA 2 cut(s) 1305, 1398
MscI TGGCCA 2 cut(s) 1305, 1398
MseI TTAA 5 cut(s) 426, 446, 567, 1050, 1170
MslI CAYNNNNRTG 2 cut(s) 1284, 1349
Msp20I TGGCCA 2 cut(s) 1305, 1398
MspA1I CMGCKG 1 cut(s) 99
MspI CCGG 1 cut(s) 515
Mva1269I GAATGC 2 cut(s) 342, 835
MwoI GCNNNNNNNGC 4 cut(s) 172, 629, 892, 1409
NcoI CCATGG 1 cut(s) 156
NdeII GATC 1 cut(s) 1140
NlaIII CATG 9 cut(s) 143, 160, 286, 893, 1152, 1283, 1289, 1304, 1364
NlaIV GGNNCC 3 cut(s) 242, 414, 471
NmuCI GTSAC 4 cut(s) 210, 625, 1270, 1351
PaeR7I CTCGAG 1 cut(s) 245
PagI TCATGA 1 cut(s) 889
PciSI GCTCTTC 1 cut(s) 577
PcsI WCGNNNNNNNCGW 1 cut(s) 640
PctI GAATGC 2 cut(s) 342, 835
PfeI GAWTC 4 cut(s) 430, 479, 538, 611
PkrI GCNGC 1 cut(s) 981
PleI GAGTC 1 cut(s) 131
PpsI GAGTC 1 cut(s) 131
PpuMI RGGWCCY 1 cut(s) 241
Psp124BI GAGCTC 1 cut(s) 897
Psp1406I AACGTT 1 cut(s) 1179
Psp5II RGGWCCY 1 cut(s) 241
PspN4I GGNNCC 3 cut(s) 242, 414, 471
PspPI GGNCC 3 cut(s) 241, 722, 1067
PspPPI RGGWCCY 1 cut(s) 241
RsaI GTAC 5 cut(s) 5, 548, 1039, 1201, 1295
RsaNI GTAC 5 cut(s) 4, 547, 1038, 1200, 1294
RseI CAYNNNNRTG 2 cut(s) 1284, 1349
SacI GAGCTC 1 cut(s) 897
SapI GCTCTTC 1 cut(s) 577
SaqAI TTAA 5 cut(s) 426, 446, 567, 1050, 1170
SatI GCNGC 1 cut(s) 980
Sau3AI GATC 1 cut(s) 1140
Sau96I GGNCC 3 cut(s) 241, 722, 1067
SchI GAGTC 1 cut(s) 132
SduI GDGCHC 1 cut(s) 897
SfcI CTRYAG 1 cut(s) 1326
Sfr274I CTCGAG 1 cut(s) 245
SinI GGWCC 2 cut(s) 241, 722
SlaI CTCGAG 1 cut(s) 245
SmiMI CAYNNNNRTG 2 cut(s) 1284, 1349
SmlI CTYRAG 2 cut(s) 245, 779
SmoI CTYRAG 2 cut(s) 245, 779
SsiI CCGC 2 cut(s) 99, 166
SspMI CTAG 3 cut(s) 381, 620, 651
SstI GAGCTC 1 cut(s) 897
StyI CCWWGG 1 cut(s) 156
TaaI ACNGT 2 cut(s) 1042, 1319
TaiI ACGT 2 cut(s) 20, 1182
TaqI TCGA 4 cut(s) 246, 701, 718, 843
TatI WGTACW 2 cut(s) 3, 1199
TfiI GAWTC 4 cut(s) 430, 479, 538, 611
Tru1I TTAA 5 cut(s) 426, 446, 567, 1050, 1170
Tru9I TTAA 5 cut(s) 426, 446, 567, 1050, 1170
TscAI CASTG 4 cut(s) 364, 888, 1356, 1377
TseFI GTSAC 4 cut(s) 210, 625, 1270, 1351
TseI GCWGC 1 cut(s) 979
Tsp45I GTSAC 4 cut(s) 210, 625, 1270, 1351
TspDTI ATGAA 8 cut(s) 271, 584, 878, 938, 1094, 1137, 1233, 1289
TspGWI ACGGA 1 cut(s) 810
TspRI CASTG 4 cut(s) 364, 888, 1356, 1377
VpaK11BI GGWCC 2 cut(s) 241, 722
XagI CCTNNNNNAGG 1 cut(s) 1260
XapI RAATTY 5 cut(s) 277, 554, 688, 809, 1112
XhoI CTCGAG 1 cut(s) 245
XmiI GTMKAC 1 cut(s) 126
XspI CTAG 3 cut(s) 381, 620, 651
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.