Rh3BG223600

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0017332
Physical Location & Seq
Reverse (-)
20410139 .. 20411554
1416 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG223600.1

Sequence Viewer

Length: 678 bp
ATGGATGACTACTCAGAGGATTGGTGCTTCGTCTGCAAAGATGGTGGTGTTCTAATGCTTTGCGACCATGAAGGCTGCTCCAAAGTTTATCATCCTAAATGTGTGGGAAGGAAGAATTCCTTCCTCAAAAGCAAGAAGCTCTGGACTTGTAGCAAGCATTCCTGTTATGTGTGCCGTAACAATGGATCAACCACCCCAGCAGCAATTAGTTTCTCATGCGTTTGTTGTCCGTACGCATTATGTGACCCTTGCTACACAGCAAGTACTACTACTAGTGCTGCTGAGTTTTCACTGCTAAGAGGGAAGGATAAGTCGGGCCTTTGCAATGACTGTTTAGAAGTTGTTAGGCTTGCAGAAGCAAACTCGGAGTATGGACCAGATGGAGAGAAACTAGACTTCAAAAACCATGACACATTTGAATGCCGACTCAAAGAGTATTGGGAATTCATAAAGAAAAACGAGGGCTTGACTTTAAATGATGTCTATTCCTCAAATGTTGGGAAAAGGAAAAGGCTAGACGAATTTTTAGGACGTTCAAAACCTCTGCTTCAGTTCCATAACTATATGAAACCTGATGCAAAGAAACTCCGGACATCTGCTGTTAGAGATCATGGGCTGAGAGAGATCAAAACAGAGAGTGTCGAGAGTTGGAAATTTCAGAGTTCAGACATTTGCTGA
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

225

Amino Acids

25.58

Weight (kDa)

8.06

Isoelectric Point (pI)

31.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 8 - 53 4.3e-06 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
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: OG0017332)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g19471
rosa_laevigata RLG00000023894 RLG00000023895
rosa_multiflora Rmu_sc0004848.1_g000006
rosa_roxburghii Rroxscaffold_6G00406840
rosa_rugosa Rorug03G0144000
rosa_samantha Rh3AG193700 Rh3AG193800 Rh3BG223500 Rh3BG223600 Rh3CG218400 Rh3CG218500 Rh3DG219500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 588
AclWI GGATC 1 cut(s) 193
AcsI RAATTY 4 cut(s) 115, 443, 521, 653
AcuI CTGAAG 1 cut(s) 533
AfaI GTAC 2 cut(s) 233, 265
AgsI TTSAA 3 cut(s) 400, 419, 537
AhlI ACTAGT 1 cut(s) 272
AluBI AGCT 1 cut(s) 139
AluI AGCT 1 cut(s) 139
AlwI GGATC 1 cut(s) 193
Aor13HI TCCGGA 1 cut(s) 588
AoxI GGCC 1 cut(s) 316
ApeKI GCWGC 3 cut(s) 75, 200, 278
ApoI RAATTY 4 cut(s) 115, 443, 521, 653
Asp700I GAANNNNTTC 1 cut(s) 119
AspS9I GGNCC 2 cut(s) 316, 374
AvaII GGWCC 1 cut(s) 374
BbvI GCAGC 3 cut(s) 62, 212, 265
BccI CCATC 2 cut(s) 35, 374
BceAI ACGGC 1 cut(s) 159
BcuI ACTAGT 1 cut(s) 272
BfaI CTAG 3 cut(s) 273, 392, 515
BisI GCNGC 3 cut(s) 76, 201, 279
BlsI GCNGC 3 cut(s) 77, 202, 280
BmcAI AGTACT 1 cut(s) 265
Bme18I GGWCC 1 cut(s) 374
BmgT120I GGNCC 2 cut(s) 316, 374
BmsI GCATC 1 cut(s) 565
BsaWI WCCGGW 1 cut(s) 588
Bse3DI GCAATG 1 cut(s) 331
BseAI TCCGGA 1 cut(s) 588
BseGI GGATG 2 cut(s) 10, 91
BseMI GCAATG 1 cut(s) 331
BseMII CTCAG 3 cut(s) 27, 273, 608
BseXI GCAGC 3 cut(s) 62, 212, 265
BseYI CCCAGC 1 cut(s) 196
BshFI GGCC 1 cut(s) 318
BsiSI CCGG 1 cut(s) 589
BsiWI CGTACG 1 cut(s) 231
BsmI GAATGC 2 cut(s) 157, 425
BsnI GGCC 1 cut(s) 318
Bsp13I TCCGGA 1 cut(s) 588
Bsp143I GATC 3 cut(s) 185, 607, 624
BspANI GGCC 1 cut(s) 318
BspCNI CTCAG 3 cut(s) 26, 274, 609
BspEI TCCGGA 1 cut(s) 588
BspPI GGATC 1 cut(s) 193
BsrDI GCAATG 1 cut(s) 331
BssMI GATC 3 cut(s) 185, 607, 624
Bst4CI ACNGT 1 cut(s) 332
BstC8I GCNNGC 2 cut(s) 155, 351
BstDEI CTNAG 4 cut(s) 13, 282, 296, 617
BstF5I GGATG 2 cut(s) 10, 91
BstKTI GATC 3 cut(s) 188, 610, 627
BstMBI GATC 3 cut(s) 185, 607, 624
BstMWI GCNNNNNNNGC 1 cut(s) 33
BstV1I GCAGC 3 cut(s) 62, 212, 265
BsuRI GGCC 1 cut(s) 318
BtsCI GGATG 2 cut(s) 10, 91
BtsI GCAGTG 1 cut(s) 290
BtsIMutI CAGTG 1 cut(s) 290
Cac8I GCNNGC 2 cut(s) 155, 351
Cfr13I GGNCC 2 cut(s) 316, 374
Csp6I GTAC 2 cut(s) 232, 264
CspCI CAANNNNNGTGG 2 cut(s) 25, 60
CviAII CATG 4 cut(s) 68, 216, 407, 611
CviJI RGCY 7 cut(s) 75, 139, 318, 349, 465, 514, 616
CviKI_1 RGCY 7 cut(s) 75, 139, 318, 349, 465, 514, 616
CviQI GTAC 2 cut(s) 232, 264
DdeI CTNAG 4 cut(s) 13, 282, 296, 617
DpnI GATC 3 cut(s) 187, 609, 626
DpnII GATC 3 cut(s) 185, 607, 624
DraI TTTAAA 1 cut(s) 474
Eco47I GGWCC 1 cut(s) 374
Eco57I CTGAAG 1 cut(s) 533
EcoRI GAATTC 2 cut(s) 115, 443
FaeI CATG 4 cut(s) 71, 219, 410, 614
FalI AAGNNNNNCTT 2 cut(s) 104, 136
FatI CATG 4 cut(s) 67, 215, 406, 610
Fnu4HI GCNGC 3 cut(s) 76, 201, 279
FokI GGATG 2 cut(s) 17, 78
Fsp4HI GCNGC 3 cut(s) 76, 201, 279
FspBI CTAG 3 cut(s) 273, 392, 515
GluI GCNGC 3 cut(s) 76, 201, 279
GsaI CCCAGC 1 cut(s) 200
HaeIII GGCC 1 cut(s) 318
HapII CCGG 1 cut(s) 589
Hin1II CATG 4 cut(s) 71, 219, 410, 614
HinfI GANTC 1 cut(s) 426
HpaII CCGG 1 cut(s) 589
Hpy188I TCNGA 4 cut(s) 16, 367, 660, 667
Hpy188III TCNNGA 3 cut(s) 142, 589, 643
HpyAV CCTTC 4 cut(s) 65, 102, 130, 298
HpyCH4III ACNGT 1 cut(s) 332
HpyCH4IV ACGT 1 cut(s) 532
HpyCH4V TGCA 4 cut(s) 36, 324, 353, 578
HpyF10VI GCNNNNNNNGC 1 cut(s) 33
HpyF3I CTNAG 4 cut(s) 13, 282, 296, 617
HpySE526I ACGT 1 cut(s) 532
Hsp92II CATG 4 cut(s) 71, 219, 410, 614
Kpn2I TCCGGA 1 cut(s) 588
Kzo9I GATC 3 cut(s) 185, 607, 624
LmnI GCTCC 1 cut(s) 83
LpnPI CCDG 6 cut(s) 127, 175, 210, 390, 585, 602
Lsp1109I GCAGC 3 cut(s) 62, 212, 265
LweI GCATC 1 cut(s) 565
MaeI CTAG 3 cut(s) 273, 392, 515
MaeII ACGT 1 cut(s) 532
MaeIII GTNAC 2 cut(s) 176, 242
MalI GATC 3 cut(s) 187, 609, 626
MboI GATC 3 cut(s) 185, 607, 624
MboII GAAGA 1 cut(s) 124
MluCI AATT 5 cut(s) 115, 204, 443, 521, 653
MlyI GAGTC 1 cut(s) 420
MmeI TCCRAC 1 cut(s) 629
MnlI CCTC 6 cut(s) 10, 134, 293, 454, 499, 552
MroI TCCGGA 1 cut(s) 588
MroXI GAANNNNTTC 1 cut(s) 119
MseI TTAA 1 cut(s) 473
MslI CAYNNNNRTG 1 cut(s) 418
MspI CCGG 1 cut(s) 589
Mva1269I GAATGC 2 cut(s) 157, 425
MwoI GCNNNNNNNGC 1 cut(s) 33
NdeII GATC 3 cut(s) 185, 607, 624
NlaIII CATG 4 cut(s) 71, 219, 410, 614
NmuCI GTSAC 1 cut(s) 242
PctI GAATGC 2 cut(s) 157, 425
PdmI GAANNNNTTC 1 cut(s) 119
Pfl23II CGTACG 1 cut(s) 231
PkrI GCNGC 3 cut(s) 77, 202, 280
PleI GAGTC 1 cut(s) 420
PpsI GAGTC 1 cut(s) 420
PspFI CCCAGC 1 cut(s) 196
PspLI CGTACG 1 cut(s) 231
PspPI GGNCC 2 cut(s) 316, 374
RsaI GTAC 2 cut(s) 233, 265
RsaNI GTAC 2 cut(s) 232, 264
RseI CAYNNNNRTG 1 cut(s) 418
SaqAI TTAA 1 cut(s) 473
SatI GCNGC 3 cut(s) 76, 201, 279
Sau3AI GATC 3 cut(s) 185, 607, 624
Sau96I GGNCC 2 cut(s) 316, 374
ScaI AGTACT 1 cut(s) 265
SchI GAGTC 1 cut(s) 420
SetI ASST 4 cut(s) 141, 535, 544, 574
SfaNI GCATC 1 cut(s) 565
SinI GGWCC 1 cut(s) 374
SmiMI CAYNNNNRTG 1 cut(s) 418
SpeI ACTAGT 1 cut(s) 272
Sse9I AATT 5 cut(s) 115, 204, 443, 521, 653
SspMI CTAG 3 cut(s) 273, 392, 515
TaaI ACNGT 1 cut(s) 332
TaiI ACGT 1 cut(s) 535
TaqI TCGA 1 cut(s) 642
TasI AATT 5 cut(s) 115, 204, 443, 521, 653
TatI WGTACW 1 cut(s) 263
Tru1I TTAA 1 cut(s) 473
Tru9I TTAA 1 cut(s) 473
TscAI CASTG 1 cut(s) 297
TseFI GTSAC 1 cut(s) 242
TseI GCWGC 3 cut(s) 75, 200, 278
Tsp45I GTSAC 1 cut(s) 242
TspDTI ATGAA 3 cut(s) 84, 436, 581
TspGWI ACGGA 1 cut(s) 219
TspRI CASTG 1 cut(s) 297
VpaK11BI GGWCC 1 cut(s) 374
XapI RAATTY 4 cut(s) 115, 443, 521, 653
XmnI GAANNNNTTC 1 cut(s) 119
XspI CTAG 3 cut(s) 273, 392, 515
ZrmI AGTACT 1 cut(s) 265
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.