RLG00000025180

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0018453
Physical Location & Seq
Forward (+)
42844776 .. 42846653
1878 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025180

Sequence Viewer

Length: 1377 bp
ATGAAGAAGAATCAGAGATCAACGAACAAAGATCACATGGATGATTATTCAGAGTCAGAGGATTGGTGCTTCATCTGCAAAGACGGTGGGGTTCTAATTCTATGCGACCACGAGGGCTGCTCCAAATCCTATCACCCTCGCTGTGTTGGAAAGAAGATATCTTTCCTCAAGAAACAAAAGCGCTGGATTTGTAGTCACCACTCCTGCTCAGCGTGCGGTGTTGCCGCTCCTGGAACTGAGATCCTCTCTTGCCTTCTTTGCACTTATGCAGTGTGTGGTAGTTGCTGCAAAAGCAGCGATGCTAATTCGGAGTTCGCAGTGGTGAGAGGGAAGGAGAAACTTGGCCTTTGCAATGACTGCTTAGGGCTTGTTAGGCTTGCAGAAGAAAATGGACAGTATGGAGTAGATGGAAAGAAATTAGGCTTCGAGGATCCAGAAACATTTGAATACGGATTCAAAGAATGTTGGGAAATCATCAAGGAAAAGGAGGGCTTGACCTTGGATGATCTCTACTTCCCATATTCCAAAGGGGTAACAGATAGTCATGACAGTGAAGACACAGAAACTCACAAGTCAACATTGGGCAAACGGAAGGCAGAAGCCGAAATTTTTGAGGATAACGAAGATCAATTTGGTAGTGACGATATTACTGCAAGCAACCACAAGAAGCAAAAATTAGTGAGCTCATCAGAGCATATGACATCAGAATCTGATTTTCATGAGGAAAATAACTCCGAGGAAAAGGAGGAAATGATTCCTAGTCCGACTAGGAATGACGAATCAGAGTGGCGCTTTGCATCTATAGTTGCTAGTAATATGAAGCTTGTCTACTTGAGAAGGAGCTTAGTGGAGGAGCTGATATCCAAGCAGCCTGATAGTTGGGAAAGAAAACTAGTTGGAAGTTATGTGAGAGTGGAAAATGAACCCGAGGACTATTTTCAGATAAAATCTTCTTACCAACTTTCACAAGTGAAAGGCATAATTAGGAACCACAACAATGGAGAAGAAATTCTCCTGCATCTGTTAACAAGAGAGGTTCCAATTTCTTTGCTATCGGATTGTGACTTCACTGAGGAAGATTGTGAAGATTTGCAAGAAAGGGTGAAAAATTACCTGATGAGGAGACCGACGGTTGTTGAAATTGAACAAAAAGCAAGAGAGCTGCATGAAGATATAACTAAGGATTGGATTGAGAGAGAGTTGGTCCGGTTACAGAAATGCATTCATCACGAGAAAAATCAGCATGGATGGATCAGCAGAGAGTTATGCGAGTATTTGAAACAAAGAAATATGCTACAGCAACCATCTGAGCAGGAAAGACTCCGAAAAGAGGTGCCACAAGTCATTGCAGAGGACTTGGACTGCAGCAATTTATGA
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

459

Amino Acids

52.91

Weight (kDa)

5.14

Isoelectric Point (pI)

56.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 22 - 67 4.6e-06 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
Plus-3 PF03126 272 - 368 2.8e-10 Plus-3 domain
NERD_plant PF25980 390 - 441 2.3e-11 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: OG0018453)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g08140
rosa_chinensis RchiOBHm_Chr3g0458001
rosa_laevigata RLG00000025180
rosa_multiflora Rmu_sc0000384.1_g000008
rosa_rugosa Rorug03G0024100
rosa_samantha Rh3BG087400 Rh3CG087900 Rh3DG088200
rosa_wichuraiana Rw0G012390 Rw3G007210

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1333
AccBSI CCGCTC 1 cut(s) 227
AccI GTMKAC 1 cut(s) 828
AciI CCGC 2 cut(s) 216, 225
AclWI GGATC 4 cut(s) 235, 425, 438, 1259
AcsI RAATTY 2 cut(s) 606, 1008
AfeI AGCGCT 1 cut(s) 182
AfiI CCNNNNNNNGG 1 cut(s) 1330
AgsI TTSAA 5 cut(s) 446, 457, 1139, 1145, 1279
AhlI ACTAGT 1 cut(s) 892
AjnI CCWGG 1 cut(s) 229
AjuI GAANNNNNNNTTGG 2 cut(s) 615, 647
AluBI AGCT 5 cut(s) 684, 823, 843, 856, 1162
AluI AGCT 5 cut(s) 684, 823, 843, 856, 1162
Alw21I GWGCWC 1 cut(s) 686
Alw26I GTCTC 1 cut(s) 1117
AlwI GGATC 4 cut(s) 235, 425, 438, 1259
AlwNI CAGNNNCTG 1 cut(s) 710
Ama87I CYCGRG 1 cut(s) 926
Aor51HI AGCGCT 1 cut(s) 182
AoxI GGCC 1 cut(s) 343
ApeKI GCWGC 6 cut(s) 117, 285, 294, 868, 1162, 1365
ApoI RAATTY 2 cut(s) 606, 1008
Asp700I GAANNNNTTC 2 cut(s) 753, 1008
AspLEI GCGC 2 cut(s) 183, 792
AspS9I GGNCC 1 cut(s) 1204
AsuHPI GGTGA 4 cut(s) 125, 188, 334, 1114
AvaI CYCGRG 1 cut(s) 926
AvaII GGWCC 1 cut(s) 1204
BamHI GGATCC 1 cut(s) 430
BanI GGYRCC 1 cut(s) 1333
BanII GRGCYC 1 cut(s) 686
BarI GAAGNNNNNNTAC 2 cut(s) 812, 844
BauI CACGAG 2 cut(s) 110, 1229
BbsI GAAGAC 1 cut(s) 561
Bbv12I GWGCWC 1 cut(s) 686
BbvI GCAGC 5 cut(s) 104, 272, 306, 880, 1149
BccI CCATC 3 cut(s) 401, 1242, 1312
BcgI CGANNNNNNTGC 2 cut(s) 632, 666
BciT130I CCWGG 1 cut(s) 231
BcoDI GTCTC 1 cut(s) 1117
BcuI ACTAGT 1 cut(s) 892
BfaI CTAG 4 cut(s) 759, 768, 810, 893
BfmI CTRYAG 3 cut(s) 801, 1295, 1363
BfoI RGCGCY 2 cut(s) 184, 793
BisI GCNGC 7 cut(s) 118, 225, 286, 295, 869, 1163, 1366
BlpI GCTNAGC 1 cut(s) 208
BlsI GCNGC 7 cut(s) 119, 226, 287, 296, 870, 1164, 1367
Bme1390I CCNGG 1 cut(s) 231
Bme18I GGWCC 1 cut(s) 1204
BmeT110I CYCGRG 1 cut(s) 926
BmgT120I GGNCC 1 cut(s) 1204
BmiI GGNNCC 4 cut(s) 432, 989, 1038, 1335
BmrFI CCNGG 1 cut(s) 231
BmsI GCATC 3 cut(s) 289, 806, 1027
BpiI GAAGAC 1 cut(s) 561
BplI GAGNNNNNCTC 4 cut(s) 104, 136, 230, 262
Bpu10I CCTNAGC 1 cut(s) 361
Bpu1102I GCTNAGC 1 cut(s) 208
BpuEI CTTGAG 2 cut(s) 152, 853
BsaI GGTCTC 1 cut(s) 1117
BsaJI CCNNGG 3 cut(s) 498, 735, 927
BsaWI WCCGGW 1 cut(s) 1206
Bsc4I CCNNNNNNNGG 1 cut(s) 1330
Bse3DI GCAATG 2 cut(s) 358, 1344
BseBI CCWGG 1 cut(s) 231
BseDI CCNNGG 3 cut(s) 498, 735, 927
BseGI GGATG 3 cut(s) 46, 508, 1253
BseLI CCNNNNNNNGG 1 cut(s) 1330
BseMI GCAATG 2 cut(s) 358, 1344
BseMII CTCAG 4 cut(s) 222, 228, 1062, 1299
BseRI GAGGAG 2 cut(s) 866, 1135
BseXI GCAGC 5 cut(s) 104, 272, 306, 880, 1149
BshFI GGCC 1 cut(s) 345
BshNI GGYRCC 1 cut(s) 1333
BsiHKAI GWGCWC 1 cut(s) 686
BsiHKCI CYCGRG 1 cut(s) 926
BsiSI CCGG 1 cut(s) 1207
BslI CCNNNNNNNGG 1 cut(s) 1330
BsmAI GTCTC 1 cut(s) 1117
BsmI GAATGC 1 cut(s) 1221
BsnI GGCC 1 cut(s) 345
Bso31I GGTCTC 1 cut(s) 1117
BsoBI CYCGRG 1 cut(s) 926
Bsp1286I GDGCHC 1 cut(s) 686
Bsp143I GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
Bsp1720I GCTNAGC 1 cut(s) 208
BspACI CCGC 2 cut(s) 216, 225
BspANI GGCC 1 cut(s) 345
BspCNI CTCAG 4 cut(s) 221, 229, 1063, 1300
BspHI TCATGA 2 cut(s) 544, 718
BspLI GGNNCC 4 cut(s) 432, 989, 1038, 1335
BspMAI CTGCAG 1 cut(s) 1367
BspPI GGATC 4 cut(s) 235, 425, 438, 1259
BspT107I GGYRCC 1 cut(s) 1333
BspTNI GGTCTC 1 cut(s) 1117
BsrBI CCGCTC 1 cut(s) 227
BsrDI GCAATG 2 cut(s) 358, 1344
BssECI CCNNGG 3 cut(s) 498, 735, 927
BssMI GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
BssSI CACGAG 2 cut(s) 110, 1229
BssT1I CCWWGG 1 cut(s) 498
Bst2BI CACGAG 2 cut(s) 110, 1229
Bst2UI CCWGG 1 cut(s) 231
Bst4CI ACNGT 4 cut(s) 86, 396, 551, 1132
BstAPI GCANNNNNTGC 1 cut(s) 357
BstC8I GCNNGC 3 cut(s) 214, 378, 655
BstDEI CTNAG 7 cut(s) 208, 237, 361, 844, 1071, 1179, 1308
BstF5I GGATG 3 cut(s) 46, 508, 1253
BstH2I RGCGCY 2 cut(s) 184, 793
BstHHI GCGC 2 cut(s) 183, 792
BstKTI GATC 7 cut(s) 20, 34, 243, 433, 508, 628, 1254
BstMAI GTCTC 1 cut(s) 1117
BstMBI GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
BstMWI GCNNNNNNNGC 7 cut(s) 75, 213, 258, 291, 294, 357, 373
BstNI CCWGG 1 cut(s) 231
BstSCI CCNGG 1 cut(s) 229
BstSFI CTRYAG 3 cut(s) 801, 1295, 1363
BstV1I GCAGC 5 cut(s) 104, 272, 306, 880, 1149
BstV2I GAAGAC 1 cut(s) 561
BstX2I RGATCY 2 cut(s) 240, 430
BstXI CCANNNNNNTGG 1 cut(s) 998
BstYI RGATCY 2 cut(s) 240, 430
BsuRI GGCC 1 cut(s) 345
BtgZI GCGATG 1 cut(s) 312
BtsCI GGATG 3 cut(s) 46, 508, 1253
BtsI GCAGTG 2 cut(s) 276, 324
BtsIMutI CAGTG 4 cut(s) 276, 324, 556, 1068
Cac8I GCNNGC 3 cut(s) 214, 378, 655
CaiI CAGNNNCTG 1 cut(s) 710
CciI TCATGA 2 cut(s) 544, 718
CfoI GCGC 2 cut(s) 183, 792
Cfr13I GGNCC 1 cut(s) 1204
CspCI CAANNNNNGTGG 2 cut(s) 67, 102
CviAII CATG 5 cut(s) 37, 545, 719, 1166, 1244
DdeI CTNAG 7 cut(s) 208, 237, 361, 844, 1071, 1179, 1308
DpnI GATC 7 cut(s) 19, 33, 242, 432, 507, 627, 1253
DpnII GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
Ecl136II GAGCTC 1 cut(s) 684
Eco130I CCWWGG 1 cut(s) 498
Eco24I GRGCYC 1 cut(s) 686
Eco31I GGTCTC 1 cut(s) 1117
Eco32I GATATC 2 cut(s) 159, 861
Eco47I GGWCC 1 cut(s) 1204
Eco47III AGCGCT 1 cut(s) 182
Eco53kI GAGCTC 1 cut(s) 684
Eco88I CYCGRG 1 cut(s) 926
EcoICRI GAGCTC 1 cut(s) 684
EcoRII CCWGG 1 cut(s) 229
EcoRV GATATC 2 cut(s) 159, 861
EcoT14I CCWWGG 1 cut(s) 498
EcoT22I ATGCAT 1 cut(s) 1223
EcoT38I GRGCYC 1 cut(s) 686
ErhI CCWWGG 1 cut(s) 498
FaeI CATG 5 cut(s) 40, 548, 722, 1169, 1247
FalI AAGNNNNNCTT 2 cut(s) 476, 508
FatI CATG 5 cut(s) 36, 544, 718, 1165, 1243
FauNDI CATATG 1 cut(s) 696
FblI GTMKAC 1 cut(s) 828
Fnu4HI GCNGC 7 cut(s) 118, 225, 286, 295, 869, 1163, 1366
FokI GGATG 3 cut(s) 53, 515, 1260
FriOI GRGCYC 1 cut(s) 686
Fsp4HI GCNGC 7 cut(s) 118, 225, 286, 295, 869, 1163, 1366
FspBI CTAG 4 cut(s) 759, 768, 810, 893
GlaI GCGC 2 cut(s) 182, 791
GluI GCNGC 7 cut(s) 118, 225, 286, 295, 869, 1163, 1366
HaeII RGCGCY 2 cut(s) 184, 793
HaeIII GGCC 1 cut(s) 345
HapII CCGG 1 cut(s) 1207
HhaI GCGC 2 cut(s) 183, 792
Hin1II CATG 5 cut(s) 40, 548, 722, 1169, 1247
Hin6I GCGC 2 cut(s) 181, 790
HinP1I GCGC 2 cut(s) 181, 790
HincII GTYRAC 2 cut(s) 576, 1026
HindII GTYRAC 2 cut(s) 576, 1026
HindIII AAGCTT 1 cut(s) 821
HinfI GANTC 7 cut(s) 10, 53, 453, 707, 754, 779, 1320
HpaI GTTAAC 1 cut(s) 1026
HpaII CCGG 1 cut(s) 1207
HphI GGTGA 4 cut(s) 125, 188, 334, 1114
Hpy166II GTNNAC 3 cut(s) 576, 829, 1026
Hpy188III TCNNGA 5 cut(s) 169, 434, 545, 719, 1229
Hpy8I GTNNAC 3 cut(s) 576, 829, 1026
Hpy99I CGWCG 1 cut(s) 1132
HpyAV CCTTC 4 cut(s) 263, 325, 586, 831
HpyCH4III ACNGT 4 cut(s) 86, 396, 551, 1132
HpyF10VI GCNNNNNNNGC 7 cut(s) 75, 213, 258, 291, 294, 357, 373
HpyF3I CTNAG 7 cut(s) 208, 237, 361, 844, 1071, 1179, 1308
Hsp92II CATG 5 cut(s) 40, 548, 722, 1169, 1247
HspAI GCGC 2 cut(s) 181, 790
KspAI GTTAAC 1 cut(s) 1026
Kzo9I GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
LmnI GCTCC 4 cut(s) 125, 232, 840, 853
Lsp1109I GCAGC 5 cut(s) 104, 272, 306, 880, 1149
LweI GCATC 3 cut(s) 289, 806, 1027
MaeI CTAG 4 cut(s) 759, 768, 810, 893
MaeIII GTNAC 5 cut(s) 194, 532, 638, 1061, 1209
MalI GATC 7 cut(s) 19, 33, 242, 432, 507, 627, 1253
MbiI CCGCTC 1 cut(s) 227
MboI GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
MflI RGATCY 2 cut(s) 240, 430
MhlI GDGCHC 1 cut(s) 686
MlyI GAGTC 2 cut(s) 62, 1314
MmeI TCCRAC 3 cut(s) 127, 788, 877
Mph1103I ATGCAT 1 cut(s) 1223
MroXI GAANNNNTTC 2 cut(s) 753, 1008
MseI TTAA 1 cut(s) 1025
MslI CAYNNNNRTG 3 cut(s) 39, 549, 996
MspI CCGG 1 cut(s) 1207
MspR9I CCNGG 1 cut(s) 231
Mva1269I GAATGC 1 cut(s) 1221
MvaI CCWGG 1 cut(s) 231
MwoI GCNNNNNNNGC 7 cut(s) 75, 213, 258, 291, 294, 357, 373
NdeI CATATG 1 cut(s) 696
NdeII GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
NlaIII CATG 5 cut(s) 40, 548, 722, 1169, 1247
NlaIV GGNNCC 4 cut(s) 432, 989, 1038, 1335
NmuCI GTSAC 3 cut(s) 194, 638, 1061
NsiI ATGCAT 1 cut(s) 1223
PagI TCATGA 2 cut(s) 544, 718
PctI GAATGC 1 cut(s) 1221
PdmI GAANNNNTTC 2 cut(s) 753, 1008
PfeI GAWTC 5 cut(s) 10, 453, 707, 754, 779
PfoI TCCNGGA 1 cut(s) 229
PkrI GCNGC 7 cut(s) 119, 226, 287, 296, 870, 1164, 1367
PleI GAGTC 2 cut(s) 61, 1314
PpsI GAGTC 2 cut(s) 61, 1314
Psp124BI GAGCTC 1 cut(s) 686
Psp6I CCWGG 1 cut(s) 229
PspGI CCWGG 1 cut(s) 229
PspN4I GGNNCC 4 cut(s) 432, 989, 1038, 1335
PspPI GGNCC 1 cut(s) 1204
PstI CTGCAG 1 cut(s) 1367
PstNI CAGNNNCTG 1 cut(s) 710
PsuI RGATCY 2 cut(s) 240, 430
RseI CAYNNNNRTG 3 cut(s) 39, 549, 996
SacI GAGCTC 1 cut(s) 686
SaqAI TTAA 1 cut(s) 1025
SatI GCNGC 7 cut(s) 118, 225, 286, 295, 869, 1163, 1366
Sau3AI GATC 7 cut(s) 17, 31, 240, 430, 505, 625, 1251
Sau96I GGNCC 1 cut(s) 1204
SchI GAGTC 2 cut(s) 62, 1314
ScrFI CCNGG 1 cut(s) 231
SduI GDGCHC 1 cut(s) 686
SetI ASST 9 cut(s) 500, 686, 825, 845, 858, 1038, 1116, 1164, 1335
SfaNI GCATC 3 cut(s) 289, 806, 1027
SfcI CTRYAG 3 cut(s) 801, 1295, 1363
SinI GGWCC 1 cut(s) 1204
SmiMI CAYNNNNRTG 3 cut(s) 39, 549, 996
SmlI CTYRAG 2 cut(s) 167, 832
SmoI CTYRAG 2 cut(s) 167, 832
SpeI ACTAGT 1 cut(s) 892
SsiI CCGC 2 cut(s) 216, 225
SspMI CTAG 4 cut(s) 759, 768, 810, 893
SstI GAGCTC 1 cut(s) 686
StyD4I CCNGG 1 cut(s) 229
StyI CCWWGG 1 cut(s) 498
TaaI ACNGT 4 cut(s) 86, 396, 551, 1132
TaqI TCGA 1 cut(s) 426
TaqII GACCGA 1 cut(s) 1141
TauI GCSGC 1 cut(s) 227
TfiI GAWTC 5 cut(s) 10, 453, 707, 754, 779
Tru1I TTAA 1 cut(s) 1025
Tru9I TTAA 1 cut(s) 1025
TscAI CASTG 4 cut(s) 276, 324, 556, 1075
TseFI GTSAC 3 cut(s) 194, 638, 1061
TseI GCWGC 6 cut(s) 117, 285, 294, 868, 1162, 1365
Tsp45I GTSAC 3 cut(s) 194, 638, 1061
TspDTI ATGAA 7 cut(s) 17, 61, 707, 833, 936, 1182, 1214
TspGWI ACGGA 2 cut(s) 465, 604
TspRI CASTG 4 cut(s) 276, 324, 556, 1075
VpaK11BI GGWCC 1 cut(s) 1204
XapI RAATTY 2 cut(s) 606, 1008
XmiI GTMKAC 1 cut(s) 828
XmnI GAANNNNTTC 2 cut(s) 753, 1008
XspI CTAG 4 cut(s) 759, 768, 810, 893
Zsp2I ATGCAT 1 cut(s) 1223
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.