Rroxscaffold_1G00066820

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0017621
Physical Location & Seq
Reverse (-)
88314799 .. 88316308
1510 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00066820.1

Sequence Viewer

Length: 1407 bp
ATGGAAAACTCGGAGGATTGGTGCTTCATCTGCAAAGATGGTGGGCGAAGCACCTGTGTTCCGAGTGTTTTAACGGATCAGTCGCAATTAGCTTCTCATGCCTTTGCTGTACATACGTATTATGTCACCCTTAAGAGGGAAGGACAAGGAAGCTACACAAGTACTACTAGTGCTGCTTCTGAGTTTTCACTGATAAGAGGGAAGGACAAGGAAGGCCTATGCAAGGAGTGTTTGGAGCTGGTTAGGCTCGCGGAATCAAACTCAGAATATAGACCAGATGGAAAGAGACTAGACTTCGAGGATAGGGATACATTTGAATGCCGATTCAAGGAGTGTTGGGAAATCATAAAGGAAAACGAGGGCTTGACTTTGGATGATGTCTATTCCCCAAATAGTAACAATGATGATGGTGACGACGATGATGATCATATAGAAATTCAAAAGTCAACATTGGGAAAAAGGAAGGCAGAAGCAGAAGAGTTTATAATTAATGACAGTGATGATGATGATCATCTACAATTTCAGAAGTCTATATTACTAAAAAGGCAGAAGGTAGAAGCGAAATTTATAGGATGGGGATCAGAACCTCTGATTCGGTTCCTTCAAACTGTAAAGAAAGATACAAGCAAACAATTATCGCATCGTGATTTGGGATCTGCAGTCTATGAGTATGTCATCGATAGACACTTTCTTGAGTATACAAATAAGAAGACAAAGGTTAGATGTGACTATAGGCTGAGTAAAATTTTCGGAAAGGAAGAGGTAGATGTGGTCGATGTATTTAGTTTACTGGATCAACATTTGGAGAATGTTGAAGAAACCTGTTATGCATCTATAGTAACTACTAACATGAAGCTTGTCTACTTGAGAAAGAGTTTAGTGGAGAAGTTGATGTTGGAGCAGCCCGAAAGTTGGGAGAGAAAGGTGGTGGGAAGTTTTGTGAGAGTGGAAAATGTTGATGGAAATAATTCTTCTGATCACAAACTCATACAAGTTAAGGGCATAACTAAGGAAGACAAGAATGATGAGATTCTTCTGGAACTGCTTGGGAGAGAGGATCCGATTTCAATTTCTCTGCTATCGGATTGCGACTTCACTGAGGAAGAATGTGAGGATTTGCAACGAAGCCCGGAAATTTGCCTGCTGAGGAGACATACAATTGCCGAGATTGAGCAGAAGGCAAGAGAGCTGCACGAGGATATAACAAAGGATTGGATTGAAAGAGAGTTGGTCCGGTTAGAGGATTGCATTACTCATGAGAAAAAGCAGAACGGATGGATCAGTGGAGATCTAAGTGAGTATTGGCGCAAGATAGAGATGCTACAACAATCGTCTGAACATGAACGACGCTTGAAGCAAGTGCCACAAGTGATTCCAGAAAGGAATAAAACTTGCTTGTTCTTCTGA
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
Plus-3 SWIB

Protein Analysis

468

Amino Acids

54.51

Weight (kDa)

4.94

Isoelectric Point (pI)

49.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SWIB PF02201 194 - 268 2.2e-06 SWIB/MDM2 domain
Plus-3 PF03126 283 - 375 1.1e-10 Plus-3 domain
NERD_plant PF25980 399 - 450 8.5e-06 Plant NERD 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: OG0017621)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g08570
rosa_chinensis RchiOBHm_Chr5g0009271
rosa_laevigata RLG00000031643
rosa_multiflora Rmu_sc0006233.1_g000013
rosa_roxburghii Rroxscaffold_1G00066820 Rroxscaffold_1G00067520
rosa_rugosa Rorug04G0441700
rosa_samantha Rh5AG071800 Rh5BG068300 Rh5CG080700 Rh5DG068500
rosa_wichuraiana Rw5G006710

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 485
AccI GTMKAC 2 cut(s) 698, 861
AccII CGCG 1 cut(s) 251
AciI CCGC 1 cut(s) 251
AclWI GGATC 7 cut(s) 84, 586, 661, 801, 1052, 1065, 1286
AcsI RAATTY 4 cut(s) 435, 563, 744, 1134
AfaI GTAC 2 cut(s) 111, 163
AfiI CCNNNNNNNGG 6 cut(s) 135, 136, 223, 328, 912, 1240
AflII CTTAAG 1 cut(s) 131
AgsI TTSAA 8 cut(s) 317, 328, 440, 605, 815, 1068, 1220, 1354
AhlI ACTAGT 1 cut(s) 167
AjuI GAANNNNNNNTTGG 2 cut(s) 878, 910
AluBI AGCT 5 cut(s) 92, 153, 238, 856, 1189
AluI AGCT 5 cut(s) 92, 153, 238, 856, 1189
Alw26I GTCTC 2 cut(s) 280, 1144
AlwI GGATC 7 cut(s) 84, 586, 661, 801, 1052, 1065, 1286
AoxI GGCC 1 cut(s) 214
ApeKI GCWGC 3 cut(s) 173, 901, 1189
ApoI RAATTY 4 cut(s) 435, 563, 744, 1134
AseI ATTAAT 1 cut(s) 489
Asp700I GAANNNNTTC 1 cut(s) 967
AspLEI GCGC 1 cut(s) 1308
AspS9I GGNCC 1 cut(s) 1231
AsuC2I CCSGG 1 cut(s) 1130
AsuHPI GGTGA 2 cut(s) 118, 422
AvaII GGWCC 1 cut(s) 1231
BamHI GGATCC 1 cut(s) 1057
BarI GAAGNNNNNNTAC 2 cut(s) 845, 877
BauI CACGAG 1 cut(s) 1193
BbsI GAAGAC 2 cut(s) 716, 1020
BbvCI CCTCAGC 1 cut(s) 1145
BbvI GCAGC 3 cut(s) 160, 913, 1176
BccI CCATC 6 cut(s) 32, 272, 401, 567, 953, 1269
BciVI GTATCC 1 cut(s) 301
BclI TGATCA 3 cut(s) 424, 508, 976
BcnI CCSGG 1 cut(s) 1130
BcoDI GTCTC 2 cut(s) 280, 1144
BcuI ACTAGT 1 cut(s) 167
BfaI CTAG 2 cut(s) 168, 290
BfmI CTRYAG 3 cut(s) 657, 730, 834
BfrI CTTAAG 1 cut(s) 131
BfuI GTATCC 1 cut(s) 301
BglII AGATCT 1 cut(s) 1288
BisI GCNGC 3 cut(s) 174, 902, 1190
BlsI GCNGC 3 cut(s) 175, 903, 1191
BmcAI AGTACT 1 cut(s) 163
Bme1390I CCNGG 1 cut(s) 1130
Bme18I GGWCC 1 cut(s) 1231
BmgT120I GGNCC 1 cut(s) 1231
BmiI GGNNCC 2 cut(s) 599, 1059
BmrFI CCNGG 1 cut(s) 1130
BmsI GCATC 3 cut(s) 649, 839, 1308
BpiI GAAGAC 2 cut(s) 716, 1020
Bpu10I CCTNAGC 1 cut(s) 1145
BpuEI CTTGAG 2 cut(s) 713, 886
BpuMI CCSGG 1 cut(s) 1130
Bsa29I ATCGAT 1 cut(s) 678
BsaAI YACGTR 1 cut(s) 117
BsaBI GATNNNNATC 4 cut(s) 423, 507, 510, 577
BsaWI WCCGGW 1 cut(s) 1233
BsaXI ACNNNNNCTCC 2 cut(s) 5, 35
Bsc4I CCNNNNNNNGG 6 cut(s) 135, 136, 223, 328, 912, 1240
Bse1I ACTGG 1 cut(s) 795
Bse8I GATNNNNATC 4 cut(s) 423, 507, 510, 577
BseCI ATCGAT 1 cut(s) 678
BseGI GGATG 3 cut(s) 379, 578, 1280
BseJI GATNNNNATC 4 cut(s) 423, 507, 510, 577
BseLI CCNNNNNNNGG 6 cut(s) 135, 136, 223, 328, 912, 1240
BseMII CTCAG 5 cut(s) 171, 276, 728, 1089, 1136
BseNI ACTGG 1 cut(s) 795
BseRI GAGGAG 1 cut(s) 1162
BseXI GCAGC 3 cut(s) 160, 913, 1176
BsgI GTGCAG 1 cut(s) 1175
Bsh1236I CGCG 1 cut(s) 251
BshFI GGCC 1 cut(s) 216
BshVI ATCGAT 1 cut(s) 678
BsiSI CCGG 2 cut(s) 1130, 1234
BslI CCNNNNNNNGG 6 cut(s) 135, 136, 223, 328, 912, 1240
BsmAI GTCTC 2 cut(s) 280, 1144
BsmI GAATGC 1 cut(s) 323
BsnI GGCC 1 cut(s) 216
Bsp1407I TGTACA 1 cut(s) 109
BspACI CCGC 1 cut(s) 251
BspANI GGCC 1 cut(s) 216
BspCNI CTCAG 5 cut(s) 172, 275, 729, 1090, 1137
BspDI ATCGAT 1 cut(s) 678
BspFNI CGCG 1 cut(s) 251
BspHI TCATGA 1 cut(s) 1255
BspLI GGNNCC 2 cut(s) 599, 1059
BspMAI CTGCAG 1 cut(s) 661
BspPI GGATC 7 cut(s) 84, 586, 661, 801, 1052, 1065, 1286
BspTI CTTAAG 1 cut(s) 131
BsrGI TGTACA 1 cut(s) 109
BsrI ACTGG 1 cut(s) 795
BssNAI GTATAC 1 cut(s) 699
BssSI CACGAG 1 cut(s) 1193
Bst1107I GTATAC 1 cut(s) 699
Bst2BI CACGAG 1 cut(s) 1193
Bst4CI ACNGT 2 cut(s) 497, 610
Bst6I CTCTTC 2 cut(s) 471, 753
BstAFI CTTAAG 1 cut(s) 131
BstAUI TGTACA 1 cut(s) 109
BstBAI YACGTR 1 cut(s) 117
BstC8I GCNNGC 2 cut(s) 249, 1142
BstDEI CTNAG 7 cut(s) 180, 262, 737, 1008, 1098, 1145, 1292
BstENI CCTNNNNNAGG 1 cut(s) 221
BstF5I GGATG 3 cut(s) 379, 578, 1280
BstFNI CGCG 1 cut(s) 251
BstHHI GCGC 1 cut(s) 1308
BstMAI GTCTC 2 cut(s) 280, 1144
BstMWI GCNNNNNNNGC 3 cut(s) 30, 98, 244
BstSCI CCNGG 1 cut(s) 1128
BstSFI CTRYAG 3 cut(s) 657, 730, 834
BstSNI TACGTA 1 cut(s) 117
BstUI CGCG 1 cut(s) 251
BstV1I GCAGC 3 cut(s) 160, 913, 1176
BstV2I GAAGAC 2 cut(s) 716, 1020
BstX2I RGATCY 3 cut(s) 653, 1057, 1288
BstYI RGATCY 3 cut(s) 653, 1057, 1288
BstZ17I GTATAC 1 cut(s) 699
Bsu15I ATCGAT 1 cut(s) 678
BsuI GTATCC 1 cut(s) 301
BsuRI GGCC 1 cut(s) 216
BsuTUI ATCGAT 1 cut(s) 678
BtsCI GGATG 3 cut(s) 379, 578, 1280
BtsIMutI CAGTG 4 cut(s) 188, 502, 1095, 1288
Cac8I GCNNGC 2 cut(s) 249, 1142
CciI TCATGA 1 cut(s) 1255
CfoI GCGC 1 cut(s) 1308
Cfr13I GGNCC 1 cut(s) 1231
ClaI ATCGAT 1 cut(s) 678
CseI GACGC 1 cut(s) 1356
Csp6I GTAC 2 cut(s) 110, 162
CspCI CAANNNNNGTGG 2 cut(s) 22, 57
CviAII CATG 4 cut(s) 98, 850, 1256, 1340
CviQI GTAC 2 cut(s) 110, 162
DdeI CTNAG 7 cut(s) 180, 262, 737, 1008, 1098, 1145, 1292
Eam1104I CTCTTC 2 cut(s) 471, 753
EarI CTCTTC 2 cut(s) 471, 753
Eco105I TACGTA 1 cut(s) 117
Eco147I AGGCCT 1 cut(s) 216
Eco47I GGWCC 1 cut(s) 1231
EcoNI CCTNNNNNAGG 1 cut(s) 221
EcoT22I ATGCAT 1 cut(s) 832
FaeI CATG 4 cut(s) 101, 853, 1259, 1343
FatI CATG 4 cut(s) 97, 849, 1255, 1339
FbaI TGATCA 3 cut(s) 424, 508, 976
FblI GTMKAC 2 cut(s) 698, 861
Fnu4HI GCNGC 3 cut(s) 174, 902, 1190
FokI GGATG 3 cut(s) 386, 585, 1287
Fsp4HI GCNGC 3 cut(s) 174, 902, 1190
FspBI CTAG 2 cut(s) 168, 290
GlaI GCGC 1 cut(s) 1307
GluI GCNGC 3 cut(s) 174, 902, 1190
HaeIII GGCC 1 cut(s) 216
HapII CCGG 2 cut(s) 1130, 1234
HgaI GACGC 1 cut(s) 1356
HhaI GCGC 1 cut(s) 1308
Hin1II CATG 4 cut(s) 101, 853, 1259, 1343
Hin6I GCGC 1 cut(s) 1306
HinP1I GCGC 1 cut(s) 1306
HincII GTYRAC 1 cut(s) 447
HindII GTYRAC 1 cut(s) 447
HindIII AAGCTT 1 cut(s) 854
HinfI GANTC 5 cut(s) 254, 324, 592, 1030, 1372
HpaII CCGG 2 cut(s) 1130, 1234
HphI GGTGA 2 cut(s) 118, 422
Hpy166II GTNNAC 4 cut(s) 447, 699, 788, 862
Hpy188III TCNNGA 5 cut(s) 644, 692, 1037, 1256, 1376
Hpy8I GTNNAC 4 cut(s) 447, 699, 788, 862
Hpy99I CGWCG 2 cut(s) 419, 1350
HpyAV CCTTC 7 cut(s) 134, 196, 206, 457, 544, 611, 1171
HpyCH4III ACNGT 2 cut(s) 497, 610
HpyCH4IV ACGT 1 cut(s) 116
HpyCH4V TGCA 7 cut(s) 33, 222, 659, 830, 1120, 1192, 1248
HpyF10VI GCNNNNNNNGC 3 cut(s) 30, 98, 244
HpyF3I CTNAG 7 cut(s) 180, 262, 737, 1008, 1098, 1145, 1292
HpySE526I ACGT 1 cut(s) 116
Hsp92II CATG 4 cut(s) 101, 853, 1259, 1343
HspAI GCGC 1 cut(s) 1306
Ksp22I TGATCA 3 cut(s) 424, 508, 976
LmnI GCTCC 2 cut(s) 235, 898
Lsp1109I GCAGC 3 cut(s) 160, 913, 1176
LweI GCATC 3 cut(s) 649, 839, 1308
MaeI CTAG 2 cut(s) 168, 290
MaeII ACGT 1 cut(s) 116
MaeIII GTNAC 5 cut(s) 124, 395, 410, 725, 838
MboII GAAGA 9 cut(s) 488, 721, 770, 827, 963, 1025, 1025, 1115, 1393
MfeI CAATTG 1 cut(s) 1158
MflI RGATCY 3 cut(s) 653, 1057, 1288
MmeI TCCRAC 1 cut(s) 876
Mph1103I ATGCAT 1 cut(s) 832
MroXI GAANNNNTTC 1 cut(s) 967
MseI TTAA 4 cut(s) 71, 132, 489, 996
MslI CAYNNNNRTG 1 cut(s) 316
MspCI CTTAAG 1 cut(s) 131
MspI CCGG 2 cut(s) 1130, 1234
MspR9I CCNGG 1 cut(s) 1130
MunI CAATTG 1 cut(s) 1158
Mva1269I GAATGC 1 cut(s) 323
MvnI CGCG 1 cut(s) 251
MwoI GCNNNNNNNGC 3 cut(s) 30, 98, 244
NciI CCSGG 1 cut(s) 1130
NlaIII CATG 4 cut(s) 101, 853, 1259, 1343
NlaIV GGNNCC 2 cut(s) 599, 1059
NmeAIII GCCGAG 1 cut(s) 1189
NmuCI GTSAC 3 cut(s) 124, 410, 725
NsiI ATGCAT 1 cut(s) 832
PagI TCATGA 1 cut(s) 1255
PceI AGGCCT 1 cut(s) 216
PctI GAATGC 1 cut(s) 323
PdmI GAANNNNTTC 1 cut(s) 967
PfeI GAWTC 5 cut(s) 254, 324, 592, 1030, 1372
PkrI GCNGC 3 cut(s) 175, 903, 1191
Ppu21I YACGTR 1 cut(s) 117
PshBI ATTAAT 1 cut(s) 489
PsiI TTATAA 1 cut(s) 485
PspN4I GGNNCC 2 cut(s) 599, 1059
PspPI GGNCC 1 cut(s) 1231
PstI CTGCAG 1 cut(s) 661
PsuI RGATCY 3 cut(s) 653, 1057, 1288
RsaI GTAC 2 cut(s) 111, 163
RsaNI GTAC 2 cut(s) 110, 162
RseI CAYNNNNRTG 1 cut(s) 316
SaqAI TTAA 4 cut(s) 71, 132, 489, 996
SatI GCNGC 3 cut(s) 174, 902, 1190
Sau96I GGNCC 1 cut(s) 1231
ScaI AGTACT 1 cut(s) 163
ScrFI CCNGG 1 cut(s) 1130
SfaNI GCATC 3 cut(s) 649, 839, 1308
SfcI CTRYAG 3 cut(s) 657, 730, 834
SinI GGWCC 1 cut(s) 1231
SmiMI CAYNNNNRTG 1 cut(s) 316
SmlI CTYRAG 3 cut(s) 131, 692, 865
SmoI CTYRAG 3 cut(s) 131, 692, 865
SnaBI TACGTA 1 cut(s) 117
SpeI ACTAGT 1 cut(s) 167
SseBI AGGCCT 1 cut(s) 216
SsiI CCGC 1 cut(s) 251
SspMI CTAG 2 cut(s) 168, 290
StuI AGGCCT 1 cut(s) 216
StyD4I CCNGG 1 cut(s) 1128
TaaI ACNGT 2 cut(s) 497, 610
TaiI ACGT 1 cut(s) 119
TaqI TCGA 3 cut(s) 297, 678, 774
TatI WGTACW 2 cut(s) 109, 161
TfiI GAWTC 5 cut(s) 254, 324, 592, 1030, 1372
Tru1I TTAA 4 cut(s) 71, 132, 489, 996
Tru9I TTAA 4 cut(s) 71, 132, 489, 996
TscAI CASTG 4 cut(s) 195, 502, 1102, 1288
TseFI GTSAC 3 cut(s) 124, 410, 725
TseI GCWGC 3 cut(s) 173, 901, 1189
Tsp45I GTSAC 3 cut(s) 124, 410, 725
TspDTI ATGAA 3 cut(s) 16, 866, 1356
TspGWI ACGGA 2 cut(s) 89, 1287
TspRI CASTG 4 cut(s) 195, 502, 1102, 1288
Vha464I CTTAAG 1 cut(s) 131
VpaK11BI GGWCC 1 cut(s) 1231
VspI ATTAAT 1 cut(s) 489
XagI CCTNNNNNAGG 1 cut(s) 221
XapI RAATTY 4 cut(s) 435, 563, 744, 1134
XmiI GTMKAC 2 cut(s) 698, 861
XmnI GAANNNNTTC 1 cut(s) 967
XspI CTAG 2 cut(s) 168, 290
ZrmI AGTACT 1 cut(s) 163
Zsp2I ATGCAT 1 cut(s) 832
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.