Rroxscaffold_4G00293640

DNL-type zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015054
Physical Location & Seq
Forward (+)
13859822 .. 13861869
2048 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00293640.1

Sequence Viewer

Length: 603 bp
ATGGCTGCTCGGATGTTGCAGAAGCGAATCTGCTCACTCCTCTTCCGCGATCAGCCTTGTCTCACCCAAGCGATCAAAGAACAATCTGTTCCTTCTGCATATTCTATCTTCAGCAGATTTCAGCTTGGTAAAAGAGATATTCAGACGGAAACAAAGCCAGCTAATCTTACCAATGAGGATACTAAGCTTGAAAATCAAGAAGCTGATAGTTTGAAGCCTAGTTGTGACTCAGATGACCAACCCTCTCACTCATCTGCTGGCAAACTTGTTGAGATCAAAATGCACGCTGAATACAACTTGAAAACATCCCCGAGGCATGACCTTTGTATGGTTTTCACTTGCACAGTCTGTAACACAAGAACAATGAAGACAGCTTCTCGAGAAGCATACGAGAAAGGTGTGGTGGTGGCACGCTGCAGTGGGTGTGACAACCTCCACCTGTTTGCTGATCATCTTGGAATGTTTGGAGAGAAGTGCACCGTTGAGGACTTTCTGGCTGCTCGTGGGGAGGAGGTGAAGAAGGGTACTACTGATACACTGAATCTGACTATTGAAGATCTGGCTGGAAAGGACTTCGCTGGAAAGAAAGTGGAAAATGCTTGA
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
zf-DNL

Protein Analysis

200

Amino Acids

22.22

Weight (kDa)

6.22

Isoelectric Point (pI)

42.65

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-DNL PF05180 110 - 170 3.8e-24 DNL 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: OG0015054)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G54826
fragaria_vesca FvH4_7g19000
malus_domestica MD01G1105600.v1.1 MD07G1171800.v1.1
pyrus_communis pycom01g13240 pycom07g16640
rosa_chinensis RchiOBHm_Chr1g0362931
rosa_laevigata RLG00000027611
rosa_multiflora Rmu_sc0001502.1_g000005
rosa_roxburghii Rroxscaffold_4G00293640
rosa_rugosa Rorug01G0302200
rosa_samantha Rh1AG311700 Rh1BG274800 Rh1CG292000 Rh1DG305500
rosa_wichuraiana Rw1G027620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 48
AciI CCGC 1 cut(s) 46
AcuI CTGAAG 1 cut(s) 94
AfaI GTAC 1 cut(s) 526
AfiI CCNNNNNNNGG 1 cut(s) 328
AgsI TTSAA 4 cut(s) 191, 214, 301, 554
AluBI AGCT 5 cut(s) 124, 161, 187, 203, 374
AluI AGCT 5 cut(s) 124, 161, 187, 203, 374
Alw21I GWGCWC 1 cut(s) 479
Alw26I GTCTC 1 cut(s) 65
Alw44I GTGCAC 1 cut(s) 475
Ama87I CYCGRG 2 cut(s) 310, 378
ApaLI GTGCAC 1 cut(s) 475
ApeKI GCWGC 3 cut(s) 5, 414, 497
AsuHPI GGTGA 2 cut(s) 55, 526
AvaI CYCGRG 2 cut(s) 310, 378
BaeGI GKGCMC 1 cut(s) 479
BauI CACGAG 1 cut(s) 501
BbsI GAAGAC 1 cut(s) 374
Bbv12I GWGCWC 1 cut(s) 479
BbvI GCAGC 2 cut(s) 401, 484
BciVI GTATCC 1 cut(s) 172
BclI TGATCA 1 cut(s) 448
BcoDI GTCTC 1 cut(s) 65
BfaI CTAG 1 cut(s) 219
BfmI CTRYAG 1 cut(s) 415
BfuI GTATCC 1 cut(s) 172
BglII AGATCT 1 cut(s) 556
BisI GCNGC 3 cut(s) 6, 415, 498
BlsI GCNGC 3 cut(s) 7, 416, 499
BmeT110I CYCGRG 2 cut(s) 310, 378
BpiI GAAGAC 1 cut(s) 374
BsaJI CCNNGG 1 cut(s) 311
Bsc4I CCNNNNNNNGG 1 cut(s) 328
BseDI CCNNGG 1 cut(s) 311
BseGI GGATG 2 cut(s) 18, 305
BseLI CCNNNNNNNGG 1 cut(s) 328
BseMII CTCAG 1 cut(s) 243
BseRI GAGGAG 2 cut(s) 29, 524
BseSI GKGCMC 1 cut(s) 479
BseXI GCAGC 2 cut(s) 401, 484
Bsh1236I CGCG 1 cut(s) 48
BsiHKAI GWGCWC 1 cut(s) 479
BsiHKCI CYCGRG 2 cut(s) 310, 378
BslI CCNNNNNNNGG 1 cut(s) 328
BsmAI GTCTC 1 cut(s) 65
BsoBI CYCGRG 2 cut(s) 310, 378
Bsp1286I GDGCHC 1 cut(s) 479
Bsp143I GATC 5 cut(s) 49, 72, 273, 448, 556
BspACI CCGC 1 cut(s) 46
BspCNI CTCAG 1 cut(s) 242
BspFNI CGCG 1 cut(s) 48
BspMAI CTGCAG 1 cut(s) 419
BssECI CCNNGG 1 cut(s) 311
BssMI GATC 5 cut(s) 49, 72, 273, 448, 556
BssSI CACGAG 1 cut(s) 501
Bst2BI CACGAG 1 cut(s) 501
Bst4CI ACNGT 2 cut(s) 346, 481
Bst6I CTCTTC 1 cut(s) 47
BstC8I GCNNGC 4 cut(s) 159, 259, 285, 412
BstDEI CTNAG 2 cut(s) 183, 229
BstF5I GGATG 2 cut(s) 18, 305
BstFNI CGCG 1 cut(s) 48
BstKTI GATC 5 cut(s) 52, 75, 276, 451, 559
BstMAI GTCTC 1 cut(s) 65
BstMBI GATC 5 cut(s) 49, 72, 273, 448, 556
BstSFI CTRYAG 1 cut(s) 415
BstSLI GKGCMC 1 cut(s) 479
BstUI CGCG 1 cut(s) 48
BstV1I GCAGC 2 cut(s) 401, 484
BstV2I GAAGAC 1 cut(s) 374
BstX2I RGATCY 1 cut(s) 556
BstYI RGATCY 1 cut(s) 556
BsuI GTATCC 1 cut(s) 172
BtsCI GGATG 2 cut(s) 18, 305
BtsI GCAGTG 1 cut(s) 424
BtsIMutI CAGTG 2 cut(s) 424, 536
Cac8I GCNNGC 4 cut(s) 159, 259, 285, 412
Csp6I GTAC 1 cut(s) 525
CviAII CATG 1 cut(s) 317
CviQI GTAC 1 cut(s) 525
DdeI CTNAG 2 cut(s) 183, 229
DpnI GATC 5 cut(s) 51, 74, 275, 450, 558
DpnII GATC 5 cut(s) 49, 72, 273, 448, 556
Eam1104I CTCTTC 1 cut(s) 47
EarI CTCTTC 1 cut(s) 47
Eco57I CTGAAG 1 cut(s) 94
Eco88I CYCGRG 2 cut(s) 310, 378
FaeI CATG 1 cut(s) 320
FaiI YATR 4 cut(s) 100, 318, 329, 388
FatI CATG 1 cut(s) 316
FbaI TGATCA 1 cut(s) 448
Fnu4HI GCNGC 3 cut(s) 6, 415, 498
FokI GGATG 2 cut(s) 25, 292
Fsp4HI GCNGC 3 cut(s) 6, 415, 498
FspBI CTAG 1 cut(s) 219
GluI GCNGC 3 cut(s) 6, 415, 498
Hin1II CATG 1 cut(s) 320
HindIII AAGCTT 1 cut(s) 185
HinfI GANTC 3 cut(s) 27, 227, 541
HphI GGTGA 2 cut(s) 55, 526
Hpy166II GTNNAC 1 cut(s) 477
Hpy188I TCNGA 4 cut(s) 12, 144, 232, 546
Hpy188III TCNNGA 3 cut(s) 197, 378, 380
Hpy8I GTNNAC 1 cut(s) 477
HpyAV CCTTC 2 cut(s) 102, 514
HpyCH4III ACNGT 2 cut(s) 346, 481
HpyCH4V TGCA 6 cut(s) 19, 98, 283, 342, 417, 477
HpyF3I CTNAG 2 cut(s) 183, 229
Hsp92II CATG 1 cut(s) 320
Ksp22I TGATCA 1 cut(s) 448
Kzo9I GATC 5 cut(s) 49, 72, 273, 448, 556
LpnPI CCDG 7 cut(s) 171, 243, 452, 479, 545, 549, 564
Lsp1109I GCAGC 2 cut(s) 401, 484
MaeI CTAG 1 cut(s) 219
MaeIII GTNAC 3 cut(s) 224, 350, 425
MalI GATC 5 cut(s) 51, 74, 275, 450, 558
MboI GATC 5 cut(s) 49, 72, 273, 448, 556
MboII GAAGA 5 cut(s) 34, 100, 379, 529, 566
MflI RGATCY 1 cut(s) 556
MhlI GDGCHC 1 cut(s) 479
MlyI GAGTC 1 cut(s) 221
MnlI CCTC 8 cut(s) 50, 169, 253, 306, 443, 478, 502, 505
MvnI CGCG 1 cut(s) 48
NdeII GATC 5 cut(s) 49, 72, 273, 448, 556
NlaIII CATG 1 cut(s) 320
NmuCI GTSAC 2 cut(s) 224, 425
PaeR7I CTCGAG 1 cut(s) 378
PfeI GAWTC 2 cut(s) 27, 541
PkrI GCNGC 3 cut(s) 7, 416, 499
PleI GAGTC 1 cut(s) 221
PpsI GAGTC 1 cut(s) 221
PstI CTGCAG 1 cut(s) 419
PsuI RGATCY 1 cut(s) 556
RsaI GTAC 1 cut(s) 526
RsaNI GTAC 1 cut(s) 525
SatI GCNGC 3 cut(s) 6, 415, 498
Sau3AI GATC 5 cut(s) 49, 72, 273, 448, 556
SchI GAGTC 1 cut(s) 221
SduI GDGCHC 1 cut(s) 479
SfcI CTRYAG 1 cut(s) 415
Sfr274I CTCGAG 1 cut(s) 378
SlaI CTCGAG 1 cut(s) 378
SmlI CTYRAG 1 cut(s) 378
SmoI CTYRAG 1 cut(s) 378
SsiI CCGC 1 cut(s) 46
SspMI CTAG 1 cut(s) 219
TaaI ACNGT 2 cut(s) 346, 481
TaqI TCGA 1 cut(s) 379
TfiI GAWTC 2 cut(s) 27, 541
TscAI CASTG 2 cut(s) 424, 543
TseFI GTSAC 2 cut(s) 224, 425
TseI GCWGC 3 cut(s) 5, 414, 497
Tsp45I GTSAC 2 cut(s) 224, 425
TspDTI ATGAA 1 cut(s) 380
TspGWI ACGGA 1 cut(s) 161
TspRI CASTG 2 cut(s) 424, 543
VneI GTGCAC 1 cut(s) 475
XhoI CTCGAG 1 cut(s) 378
XspI CTAG 1 cut(s) 219
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.