RLG00000016213

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0018342
Physical Location & Seq
Forward (+)
4773255 .. 4774808
1554 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000016213

Sequence Viewer

Length: 1554 bp
ATGAAGAAACAGGGAATAAACATAGAGCTGGATGAAGCAGAAGACTGGTGCTTCGTCTGCAAAGATGGTGGAGCCTTGAGGCTGTGTGACTACCAGGGCTGCACCAAAGTCTATCACCCCAAATGTGTAGGAAGGAAGAATACTTTTCTCAAAAGCGAGAGGCGATGGATTTGTGATCACCACTCTTGTTCAGTGTGTTGCTCCGGGATCAAAATCGGCTTCTCTTGCCTTCTTTGCACATTTTCAGTGTGTGAGAATTGCCGCAAAAGTAGTGATGACTCTGAGTTTGCGGTGGTGAGAGGGAAGGAGAAATTAGGCCTTTGTGAGAATTGTTTAGAGCTTGTTAGGCTTGCGGAGGAGAATGCCGAGTATGATGGAGATGGAGATAAGTTGGACTTTGAGGATCAGGAGACATTCGAAACCGGATTCAAAGAGTGTTGGGAGATCCTTAAGGAAAAGGAGGGCTTGAGTTTGGATGATATATATGAAGAAAGAAGAGAGATGATAGATGAAGAGGAAATGACATTGAAAGAACTTCTCCTGCGGAAACACAACAACCGAAAATCAGATCATGTGGCATCATTTGATTCTGAGGAAGAGCCTAAGAAAGTGGTTGGTCCTAATTCTCCTAGGAATACCGAAGAAAATGGGATGAGCGAGGATGAGGATGATGAAACTACATTGAAAATTTTTTCGTTGCACAAACAGAAGAAGCGAAAATTAGTGATCTCAGATTCTGAGACATCATCTGATTCTGAGGAAAAGGAGCCACATTTAGAGAATGGGATTAGTGAGGATGATGAAGATGAAATTACACTGAAAGATCACGCTGCGTGCAGATTACACAAGAAGCCAAAACTGGTGATCTCTTCTGATGTTACATCACTTAATTCTGACAAAAAGTTTGAGGAAAAGGAGGAAGTGATGGATCCTAATCCCACTAGGAACGTCGAAGAAAGTTGTTTTGCATCTGTAGTTGCTAGTAATATGGAACTTGTCTACTTACGAAGGAGCTTGGTGGAGGAGTTGATGTCAAAGCAGCCTGATAAATGGGAGAGAAAGGTAGTGGGAAGCTATGTAAGAGTGGAAAATGACCCCAAAGACTATTTCCGGGGAAATTCCTCTCACCAACTTACACAAGTGAAAGGCATAACTAGGAAGCACGACGGTGAAGAAATTCTCCTACAACTGCTCACAAGAGATGTTCCCATTTCCTTGCTATCGGATTGCGATTTTACCGAGGAAGAATGTGGGGATTTGCGAGACAGAGTGGAGAATTATCTGGTAAGGAGACCTACTGTCGTTGAGATTGAACATAAAGCAAGAGAGCTGCACGAGGATCTAACAAAGGATTGGATTGAGAGAGAATTTATCCGGTTAATGAATTGCATTCCTCGCGAGACAAATCAGAGTGGATGGATCAGCACGAAGTTATCCAAGTATTTGGAGCTCAGAGAGATGTTAAAGCAAATATCAGAACAGGAAAGACTCTTGCAAAAGGAGCCACAAGTCATTGCAGAGGTCTTGGACTTGAGCGACTTATGGCTTGTTTAA
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

518

Amino Acids

60.0

Weight (kDa)

4.88

Isoelectric Point (pI)

56.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 16 - 61 4.5e-06 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
Plus-3 PF03126 329 - 424 2.9e-11 Plus-3 domain
NERD_plant PF25980 446 - 497 2.9e-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: OG0018342)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g05690 FvH4_4g12500
rosa_chinensis RchiOBHm_Chr2g0091341
rosa_laevigata RLG00000016213
rosa_rugosa Rorug02G0016500
rosa_samantha Rh2AG061400 Rh2BG060800 Rh2CG062800 Rh2DG061400
rosa_wichuraiana Rw2G004830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 999
AccII CGCG 1 cut(s) 1398
AciI CCGC 4 cut(s) 262, 290, 353, 544
AclWI GGATC 7 cut(s) 215, 411, 439, 923, 936, 1347, 1427
AcsI RAATTY 4 cut(s) 687, 1117, 1176, 1367
AflII CTTAAG 1 cut(s) 449
AgsI TTSAA 4 cut(s) 430, 529, 685, 1313
AhdI GACNNNNNGTC 1 cut(s) 1298
AjnI CCWGG 1 cut(s) 93
AjuI GAANNNNNNNTTGG 2 cut(s) 1091, 1123
AleI CACNNNNGTG 1 cut(s) 1167
AluBI AGCT 6 cut(s) 28, 340, 1014, 1074, 1330, 1450
AluI AGCT 6 cut(s) 28, 340, 1014, 1074, 1330, 1450
Alw21I GWGCWC 1 cut(s) 1452
Alw26I GTCTC 5 cut(s) 404, 734, 1257, 1285, 1394
AlwI GGATC 7 cut(s) 215, 411, 439, 923, 936, 1347, 1427
AlwNI CAGNNNCTG 1 cut(s) 737
AoxI GGCC 1 cut(s) 316
ApeKI GCWGC 4 cut(s) 99, 830, 1039, 1330
ApoI RAATTY 4 cut(s) 687, 1117, 1176, 1367
ArsI GACNNNNNNTTYG 6 cut(s) 35, 67, 269, 301, 887, 919
Asp700I GAANNNNTTC 1 cut(s) 1176
AspA2I CCTAGG 1 cut(s) 629
AspS9I GGNCC 1 cut(s) 617
AsuC2I CCSGG 2 cut(s) 205, 1112
AsuHPI GGTGA 6 cut(s) 107, 170, 307, 874, 1118, 1181
AsuII TTCGAA 1 cut(s) 417
AvaII GGWCC 1 cut(s) 617
AvrII CCTAGG 1 cut(s) 629
BamHI GGATCC 1 cut(s) 928
BanII GRGCYC 1 cut(s) 1452
BarI GAAGNNNNNNTAC 2 cut(s) 124, 156
BauI CACGAG 1 cut(s) 1334
BbsI GAAGAC 1 cut(s) 48
Bbv12I GWGCWC 1 cut(s) 1452
BbvI GCAGC 4 cut(s) 86, 817, 1051, 1317
BccI CCATC 6 cut(s) 59, 159, 368, 374, 919, 1410
BciT130I CCWGG 1 cut(s) 95
BclI TGATCA 1 cut(s) 175
BcnI CCSGG 2 cut(s) 205, 1112
BcoDI GTCTC 5 cut(s) 404, 734, 1257, 1285, 1394
BfaI CTAG 4 cut(s) 630, 942, 981, 1155
BfmI CTRYAG 1 cut(s) 972
BfrI CTTAAG 1 cut(s) 449
BisI GCNGC 5 cut(s) 100, 262, 831, 1040, 1331
BlnI CCTAGG 1 cut(s) 629
BlsI GCNGC 5 cut(s) 101, 263, 832, 1041, 1332
Bme1390I CCNGG 3 cut(s) 95, 205, 1112
Bme18I GGWCC 1 cut(s) 617
BmeRI GACNNNNNGTC 1 cut(s) 1298
BmgT120I GGNCC 1 cut(s) 617
BmiI GGNNCC 4 cut(s) 73, 768, 930, 1503
BmrFI CCNGG 3 cut(s) 95, 205, 1112
BmsI GCATC 2 cut(s) 587, 977
BpiI GAAGAC 1 cut(s) 48
Bpu14I TTCGAA 1 cut(s) 417
BpuEI CTTGAG 3 cut(s) 97, 487, 1552
BpuMI CCSGG 2 cut(s) 205, 1112
BsaBI GATNNNNATC 2 cut(s) 212, 933
BsaI GGTCTC 1 cut(s) 1285
BsaJI CCNNGG 4 cut(s) 94, 629, 1111, 1239
BsaWI WCCGGW 2 cut(s) 422, 1374
BsaXI ACNNNNNCTCC 2 cut(s) 1016, 1046
Bse1I ACTGG 2 cut(s) 50, 864
Bse3DI GCAATG 1 cut(s) 1512
Bse8I GATNNNNATC 2 cut(s) 212, 933
BseBI CCWGG 1 cut(s) 95
BseDI CCNNGG 4 cut(s) 94, 629, 1111, 1239
BseGI GGATG 7 cut(s) 37, 481, 657, 667, 673, 802, 1421
BseJI GATNNNNATC 2 cut(s) 212, 933
BseMI GCAATG 1 cut(s) 1512
BseMII CTCAG 6 cut(s) 273, 582, 729, 744, 747, 1465
BseNI ACTGG 2 cut(s) 50, 864
BseRI GAGGAG 2 cut(s) 371, 1037
BseXI GCAGC 4 cut(s) 86, 817, 1051, 1317
BsgI GTGCAG 3 cut(s) 85, 856, 1316
Bsh1236I CGCG 1 cut(s) 1398
BshFI GGCC 1 cut(s) 318
BsiHKAI GWGCWC 1 cut(s) 1452
BsiSI CCGG 4 cut(s) 204, 423, 1111, 1375
BsmAI GTCTC 5 cut(s) 404, 734, 1257, 1285, 1394
BsmI GAATGC 2 cut(s) 367, 1389
BsnI GGCC 1 cut(s) 318
Bso31I GGTCTC 1 cut(s) 1285
Bsp119I TTCGAA 1 cut(s) 417
Bsp1286I GDGCHC 1 cut(s) 1452
Bsp68I TCGCGA 1 cut(s) 1398
BspACI CCGC 4 cut(s) 262, 290, 353, 544
BspANI GGCC 1 cut(s) 318
BspCNI CTCAG 6 cut(s) 274, 583, 730, 743, 748, 1464
BspFNI CGCG 1 cut(s) 1398
BspLI GGNNCC 4 cut(s) 73, 768, 930, 1503
BspPI GGATC 7 cut(s) 215, 411, 439, 923, 936, 1347, 1427
BspQI GCTCTTC 1 cut(s) 591
BspT104I TTCGAA 1 cut(s) 417
BspTI CTTAAG 1 cut(s) 449
BspTNI GGTCTC 1 cut(s) 1285
BsrDI GCAATG 1 cut(s) 1512
BsrI ACTGG 2 cut(s) 50, 864
BssECI CCNNGG 4 cut(s) 94, 629, 1111, 1239
BssSI CACGAG 1 cut(s) 1334
BssT1I CCWWGG 1 cut(s) 629
Bst2BI CACGAG 1 cut(s) 1334
Bst2UI CCWGG 1 cut(s) 95
Bst4CI ACNGT 2 cut(s) 1169, 1300
Bst6I CTCTTC 4 cut(s) 490, 507, 591, 874
BstAFI CTTAAG 1 cut(s) 449
BstBI TTCGAA 1 cut(s) 417
BstC8I GCNNGC 2 cut(s) 351, 835
BstDEI CTNAG 7 cut(s) 282, 591, 603, 730, 738, 756, 1451
BstF5I GGATG 7 cut(s) 37, 481, 657, 667, 673, 802, 1421
BstFNI CGCG 1 cut(s) 1398
BstMAI GTCTC 5 cut(s) 404, 734, 1257, 1285, 1394
BstMWI GCNNNNNNNGC 6 cut(s) 57, 225, 234, 346, 1395, 1501
BstNI CCWGG 1 cut(s) 95
BstSCI CCNGG 3 cut(s) 93, 203, 1110
BstSFI CTRYAG 1 cut(s) 972
BstUI CGCG 1 cut(s) 1398
BstV1I GCAGC 4 cut(s) 86, 817, 1051, 1317
BstV2I GAAGAC 1 cut(s) 48
BstX2I RGATCY 3 cut(s) 444, 928, 1339
BstXI CCANNNNNNTGG 1 cut(s) 1444
BstYI RGATCY 3 cut(s) 444, 928, 1339
BsuRI GGCC 1 cut(s) 318
BtgZI GCGATG 1 cut(s) 178
BtsCI GGATG 7 cut(s) 37, 481, 657, 667, 673, 802, 1421
BtsIMutI CAGTG 3 cut(s) 198, 252, 815
BtuMI TCGCGA 1 cut(s) 1398
Cac8I GCNNGC 2 cut(s) 351, 835
CaiI CAGNNNCTG 1 cut(s) 737
Cfr13I GGNCC 1 cut(s) 617
CspCI CAANNNNNGTGG 2 cut(s) 49, 84
CviAII CATG 1 cut(s) 572
DdeI CTNAG 7 cut(s) 282, 591, 603, 730, 738, 756, 1451
DriI GACNNNNNGTC 1 cut(s) 1298
Eam1104I CTCTTC 4 cut(s) 490, 507, 591, 874
Eam1105I GACNNNNNGTC 1 cut(s) 1298
EarI CTCTTC 4 cut(s) 490, 507, 591, 874
Ecl136II GAGCTC 1 cut(s) 1450
Eco130I CCWWGG 1 cut(s) 629
Eco147I AGGCCT 1 cut(s) 318
Eco24I GRGCYC 1 cut(s) 1452
Eco31I GGTCTC 1 cut(s) 1285
Eco47I GGWCC 1 cut(s) 617
Eco53kI GAGCTC 1 cut(s) 1450
EcoICRI GAGCTC 1 cut(s) 1450
EcoRII CCWGG 1 cut(s) 93
EcoT14I CCWWGG 1 cut(s) 629
EcoT38I GRGCYC 1 cut(s) 1452
ErhI CCWWGG 1 cut(s) 629
FaeI CATG 1 cut(s) 575
FalI AAGNNNNNCTT 4 cut(s) 380, 412, 449, 481
FatI CATG 1 cut(s) 571
FbaI TGATCA 1 cut(s) 175
FblI GTMKAC 1 cut(s) 999
Fnu4HI GCNGC 5 cut(s) 100, 262, 831, 1040, 1331
FokI GGATG 7 cut(s) 44, 488, 664, 674, 680, 809, 1428
FriOI GRGCYC 1 cut(s) 1452
Fsp4HI GCNGC 5 cut(s) 100, 262, 831, 1040, 1331
FspBI CTAG 4 cut(s) 630, 942, 981, 1155
GluI GCNGC 5 cut(s) 100, 262, 831, 1040, 1331
HaeIII GGCC 1 cut(s) 318
HapII CCGG 4 cut(s) 204, 423, 1111, 1375
Hin1II CATG 1 cut(s) 575
HinfI GANTC 6 cut(s) 278, 426, 587, 734, 752, 1488
HpaII CCGG 4 cut(s) 204, 423, 1111, 1375
HphI GGTGA 6 cut(s) 107, 170, 307, 874, 1118, 1181
Hpy166II GTNNAC 1 cut(s) 1000
Hpy188III TCNNGA 2 cut(s) 407, 1397
Hpy8I GTNNAC 1 cut(s) 1000
Hpy99I CGWCG 2 cut(s) 953, 1169
HpyAV CCTTC 4 cut(s) 126, 239, 298, 1002
HpyCH4III ACNGT 2 cut(s) 1169, 1300
HpyCH4IV ACGT 1 cut(s) 948
HpyF10VI GCNNNNNNNGC 6 cut(s) 57, 225, 234, 346, 1395, 1501
HpyF3I CTNAG 7 cut(s) 282, 591, 603, 730, 738, 756, 1451
HpySE526I ACGT 1 cut(s) 948
Hsp92II CATG 1 cut(s) 575
Ksp22I TGATCA 1 cut(s) 175
LguI GCTCTTC 1 cut(s) 591
LmnI GCTCC 6 cut(s) 71, 206, 766, 1011, 1447, 1501
Lsp1109I GCAGC 4 cut(s) 86, 817, 1051, 1317
LweI GCATC 2 cut(s) 587, 977
MaeI CTAG 4 cut(s) 630, 942, 981, 1155
MaeII ACGT 1 cut(s) 948
MaeIII GTNAC 2 cut(s) 86, 877
MflI RGATCY 3 cut(s) 444, 928, 1339
MhlI GDGCHC 1 cut(s) 1452
MlyI GAGTC 2 cut(s) 272, 1482
MmeI TCCRAC 1 cut(s) 372
MroXI GAANNNNTTC 1 cut(s) 1176
MseI TTAA 5 cut(s) 450, 888, 1379, 1463, 1552
MslI CAYNNNNRTG 1 cut(s) 1167
MspCI CTTAAG 1 cut(s) 449
MspI CCGG 4 cut(s) 204, 423, 1111, 1375
MspR9I CCNGG 3 cut(s) 95, 205, 1112
Mva1269I GAATGC 2 cut(s) 367, 1389
MvaI CCWGG 1 cut(s) 95
MvnI CGCG 1 cut(s) 1398
MwoI GCNNNNNNNGC 6 cut(s) 57, 225, 234, 346, 1395, 1501
NciI CCSGG 2 cut(s) 205, 1112
NlaIII CATG 1 cut(s) 575
NlaIV GGNNCC 4 cut(s) 73, 768, 930, 1503
NmeAIII GCCGAG 1 cut(s) 391
NmuCI GTSAC 1 cut(s) 86
NruI TCGCGA 1 cut(s) 1398
NspV TTCGAA 1 cut(s) 417
OliI CACNNNNGTG 1 cut(s) 1167
PceI AGGCCT 1 cut(s) 318
PciSI GCTCTTC 1 cut(s) 591
PctI GAATGC 2 cut(s) 367, 1389
PdmI GAANNNNTTC 1 cut(s) 1176
PfeI GAWTC 4 cut(s) 426, 587, 734, 752
PfoI TCCNGGA 1 cut(s) 203
PkrI GCNGC 5 cut(s) 101, 263, 832, 1041, 1332
PleI GAGTC 2 cut(s) 272, 1482
PpsI GAGTC 2 cut(s) 272, 1482
Psp124BI GAGCTC 1 cut(s) 1452
Psp6I CCWGG 1 cut(s) 93
PspGI CCWGG 1 cut(s) 93
PspN4I GGNNCC 4 cut(s) 73, 768, 930, 1503
PspPI GGNCC 1 cut(s) 617
PstNI CAGNNNCTG 1 cut(s) 737
PsuI RGATCY 3 cut(s) 444, 928, 1339
RruI TCGCGA 1 cut(s) 1398
RseI CAYNNNNRTG 1 cut(s) 1167
SacI GAGCTC 1 cut(s) 1452
SapI GCTCTTC 1 cut(s) 591
SaqAI TTAA 5 cut(s) 450, 888, 1379, 1463, 1552
SatI GCNGC 5 cut(s) 100, 262, 831, 1040, 1331
Sau96I GGNCC 1 cut(s) 617
SchI GAGTC 2 cut(s) 272, 1482
ScrFI CCNGG 3 cut(s) 95, 205, 1112
SduI GDGCHC 1 cut(s) 1452
SfaNI GCATC 2 cut(s) 587, 977
SfcI CTRYAG 1 cut(s) 972
SfuI TTCGAA 1 cut(s) 417
SinI GGWCC 1 cut(s) 617
SmiMI CAYNNNNRTG 1 cut(s) 1167
SmlI CTYRAG 4 cut(s) 76, 449, 466, 1531
SmoI CTYRAG 4 cut(s) 76, 449, 466, 1531
SseBI AGGCCT 1 cut(s) 318
SsiI CCGC 4 cut(s) 262, 290, 353, 544
SspMI CTAG 4 cut(s) 630, 942, 981, 1155
SstI GAGCTC 1 cut(s) 1452
StuI AGGCCT 1 cut(s) 318
StyD4I CCNGG 3 cut(s) 93, 203, 1110
StyI CCWWGG 1 cut(s) 629
TaaI ACNGT 2 cut(s) 1169, 1300
TaiI ACGT 1 cut(s) 951
TaqI TCGA 2 cut(s) 417, 951
TauI GCSGC 1 cut(s) 264
TfiI GAWTC 4 cut(s) 426, 587, 734, 752
Tru1I TTAA 5 cut(s) 450, 888, 1379, 1463, 1552
Tru9I TTAA 5 cut(s) 450, 888, 1379, 1463, 1552
TscAI CASTG 3 cut(s) 198, 252, 822
TseFI GTSAC 1 cut(s) 86
TseI GCWGC 4 cut(s) 99, 830, 1039, 1330
Tsp45I GTSAC 1 cut(s) 86
TspDTI ATGAA 8 cut(s) 17, 48, 501, 525, 687, 816, 822, 1397
TspRI CASTG 3 cut(s) 198, 252, 822
Vha464I CTTAAG 1 cut(s) 449
VpaK11BI GGWCC 1 cut(s) 617
XapI RAATTY 4 cut(s) 687, 1117, 1176, 1367
XmaJI CCTAGG 1 cut(s) 629
XmiI GTMKAC 1 cut(s) 999
XmnI GAANNNNTTC 1 cut(s) 1176
XspI CTAG 4 cut(s) 630, 942, 981, 1155
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.