Rroxscaffold_2G00147470

LYAR-type C2HC zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0013475
Physical Location & Seq
Forward (+)
85292855 .. 85295412
2558 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00147470.1

Sequence Viewer

Length: 843 bp
ATGGTGTGGTTTCAATGCGAGGACTGCGGAGACAATCTCAAGAAACCCAAGTTGCCCCACCACTTCAACACCTGCTCTGCTCGCAAGCTTTCGTGCATCGATTGTGGTGAGATGTTTGGGAGAGATACTGTTCAGGGTCACACACAGTGTATTACTGAAGCGGAAAAATATGGTCCAAAGGGACAAGCGAAAGCTGTGAATGGCGGGGGAGGCAAGGCCAACAAGGATTCAAAGCAGCAAGCCGATCTTGATATAACTGTTGGGTTATCTGAGCGCCCGCCATGGTTTTGTAGTCTTTGCAATACGAATGCGACCAGTAGGCAGACACTGATGCTCCATGCTGAAGGAAAGAAGCACAGGGGAAAGGCTCGAGCTATTCATGCTGCCAAGCAAAAGGCTATGCAGCCACAAGAATCTGCTCCAGATACAAAACCCCAACCTGAGGAAACTCCAAAAGGAATAGAAGAACCTAAATTGCAAGATGCATCTGGAAATGATGAATCAAGAAAAAAGACTAAAGATACTACATCAGGGGAAGTAGGCAATGAGAAAGTGATTCAGAATGGGAAAGCAGAAGCAAATGGAAAAGAGACCAAGTTGAAGAAAGATACAGAAGACTCTGAGAACAAAATTAAGTGGAAGAAGTTGATTACATCAACATTAAAATCGAAAGATGGAGTTCTGAAGATGAGAAAACTGAAGAAACTTGTTCTGAATGCTATTGCGGAATCTGGCATAAGAGAAGATGAAGGAAAACTGAGTACGACCTTTGAGGATAAGATCAATTCAAGCTCCAGATTTAGAGTTGAGAACAAGTATGTTCACTTGGTGGCCAAGGATTAA
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-LYAR zf-met

Protein Analysis

280

Amino Acids

30.99

Weight (kDa)

9.21

Isoelectric Point (pI)

26.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-LYAR PF08790 30 - 57 1.4e-14 LYAR-type C2HC zinc finger
zf-met PF12874 95 - 119 1e-05 Zinc-finger of C2H2 type
WHD_LYAR PF25879 209 - 279 7.8e-25 LYAR family winged helix 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: OG0013475)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G19385
fragaria_vesca FvH4_1g08060
malus_domestica MD02G1085300.v1.1 MD15G1212400.v1.1
prunus_persica Prupe.7G204300_v2.0.a1 Prupe.7G204300_v2.0.a1
pyrus_communis pycom02g06810 pycom15g18870
rosa_chinensis RchiOBHm_Chr2g0094111
rosa_laevigata RLG00000016456
rosa_multiflora Rmu_sc0026373.1_g000002 Rmu_ssc0000149.1_g000002
rosa_roxburghii Rroxscaffold_2G00147470
rosa_rugosa Rorug02G0041000
rosa_samantha Rh2AG088600 Rh2BG088700 Rh2CG091100 Rh2DG087700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 80
Acc36I ACCTGC 1 cut(s) 80
AciI CCGC 5 cut(s) 27, 161, 204, 278, 725
AcoI YGGCCR 1 cut(s) 831
AcuI CTGAAG 4 cut(s) 177, 363, 704, 719
AdeI CACNNNGTG 2 cut(s) 147, 829
AfaI GTAC 1 cut(s) 763
AfiI CCNNNNNNNGG 1 cut(s) 442
AgsI TTSAA 5 cut(s) 14, 67, 231, 601, 789
AluBI AGCT 4 cut(s) 88, 194, 374, 792
AluI AGCT 4 cut(s) 88, 194, 374, 792
Alw26I GTCTC 2 cut(s) 24, 584
AlwNI CAGNNNCTG 1 cut(s) 328
Ama87I CYCGRG 1 cut(s) 369
AoxI GGCC 2 cut(s) 216, 831
ApeKI GCWGC 3 cut(s) 235, 383, 403
AspLEI GCGC 1 cut(s) 276
AspS9I GGNCC 1 cut(s) 173
AsuHPI GGTGA 1 cut(s) 119
AvaI CYCGRG 1 cut(s) 369
AvaII GGWCC 1 cut(s) 173
AxyI CCTNAGG 1 cut(s) 441
BalI TGGCCA 1 cut(s) 833
BbsI GAAGAC 1 cut(s) 621
BbvI GCAGC 3 cut(s) 247, 370, 415
BccI CCATC 1 cut(s) 668
BcoDI GTCTC 2 cut(s) 24, 584
BfoI RGCGCY 1 cut(s) 277
BfuAI ACCTGC 1 cut(s) 80
BisI GCNGC 3 cut(s) 236, 384, 404
BlsI GCNGC 3 cut(s) 237, 385, 405
Bme18I GGWCC 1 cut(s) 173
BmeT110I CYCGRG 1 cut(s) 369
BmgT120I GGNCC 1 cut(s) 173
BmsI GCATC 4 cut(s) 105, 321, 472, 494
BpiI GAAGAC 1 cut(s) 621
BplI GAGNNNNNCTC 2 cut(s) 21, 53
BpmI CTGGAG 2 cut(s) 405, 778
BpuEI CTTGAG 1 cut(s) 23
Bsa29I ATCGAT 1 cut(s) 99
BsaI GGTCTC 1 cut(s) 584
BsaJI CCNNGG 2 cut(s) 281, 834
BsaXI ACNNNNNCTCC 2 cut(s) 318, 348
Bsc4I CCNNNNNNNGG 1 cut(s) 442
Bse1I ACTGG 1 cut(s) 315
Bse21I CCTNAGG 1 cut(s) 441
Bse3DI GCAATG 1 cut(s) 550
BseCI ATCGAT 1 cut(s) 99
BseDI CCNNGG 2 cut(s) 281, 834
BseLI CCNNNNNNNGG 1 cut(s) 442
BseMI GCAATG 1 cut(s) 550
BseMII CTCAG 4 cut(s) 261, 432, 612, 749
BseNI ACTGG 1 cut(s) 315
BseXI GCAGC 3 cut(s) 247, 370, 415
BshFI GGCC 2 cut(s) 218, 833
BshVI ATCGAT 1 cut(s) 99
BsiHKCI CYCGRG 1 cut(s) 369
BslFI GGGAC 1 cut(s) 195
BslI CCNNNNNNNGG 1 cut(s) 442
BsmAI GTCTC 2 cut(s) 24, 584
BsmFI GGGAC 1 cut(s) 195
BsmI GAATGC 2 cut(s) 313, 721
BsnI GGCC 2 cut(s) 218, 833
Bso31I GGTCTC 1 cut(s) 584
BsoBI CYCGRG 1 cut(s) 369
Bsp143I GATC 2 cut(s) 244, 780
Bsp19I CCATGG 1 cut(s) 281
BspACI CCGC 5 cut(s) 27, 161, 204, 278, 725
BspANI GGCC 2 cut(s) 218, 833
BspCNI CTCAG 4 cut(s) 262, 433, 613, 750
BspDI ATCGAT 1 cut(s) 99
BspMI ACCTGC 1 cut(s) 80
BspTNI GGTCTC 1 cut(s) 584
BsrDI GCAATG 1 cut(s) 550
BsrI ACTGG 1 cut(s) 315
BssECI CCNNGG 2 cut(s) 281, 834
BssMI GATC 2 cut(s) 244, 780
BssT1I CCWWGG 2 cut(s) 281, 834
Bst4CI ACNGT 3 cut(s) 130, 147, 259
BstC8I GCNNGC 4 cut(s) 82, 86, 240, 278
BstDEI CTNAG 4 cut(s) 270, 441, 621, 758
BstDSI CCRYGG 1 cut(s) 281
BstH2I RGCGCY 1 cut(s) 277
BstHHI GCGC 1 cut(s) 276
BstKTI GATC 2 cut(s) 247, 783
BstMAI GTCTC 2 cut(s) 24, 584
BstMBI GATC 2 cut(s) 244, 780
BstMWI GCNNNNNNNGC 4 cut(s) 24, 81, 210, 380
BstV1I GCAGC 3 cut(s) 247, 370, 415
BstV2I GAAGAC 1 cut(s) 621
Bsu15I ATCGAT 1 cut(s) 99
Bsu36I CCTNAGG 1 cut(s) 441
BsuRI GGCC 2 cut(s) 218, 833
BsuTUI ATCGAT 1 cut(s) 99
BtgI CCRYGG 1 cut(s) 281
BtsIMutI CAGTG 2 cut(s) 152, 326
BveI ACCTGC 1 cut(s) 80
Cac8I GCNNGC 4 cut(s) 82, 86, 240, 278
CaiI CAGNNNCTG 1 cut(s) 328
CfoI GCGC 1 cut(s) 276
Cfr13I GGNCC 1 cut(s) 173
ClaI ATCGAT 1 cut(s) 99
Csp6I GTAC 1 cut(s) 762
CviAII CATG 3 cut(s) 282, 338, 380
CviQI GTAC 1 cut(s) 762
DdeI CTNAG 4 cut(s) 270, 441, 621, 758
DpnI GATC 2 cut(s) 246, 782
DpnII GATC 2 cut(s) 244, 780
DraIII CACNNNGTG 2 cut(s) 147, 829
EaeI YGGCCR 1 cut(s) 831
Eco130I CCWWGG 2 cut(s) 281, 834
Eco31I GGTCTC 1 cut(s) 584
Eco47I GGWCC 1 cut(s) 173
Eco57I CTGAAG 4 cut(s) 177, 363, 704, 719
Eco81I CCTNAGG 1 cut(s) 441
Eco88I CYCGRG 1 cut(s) 369
EcoT14I CCWWGG 2 cut(s) 281, 834
EcoT22I ATGCAT 1 cut(s) 487
ErhI CCWWGG 2 cut(s) 281, 834
FaeI CATG 3 cut(s) 285, 341, 383
FaiI YATR 8 cut(s) 171, 254, 283, 339, 381, 401, 737, 819
FalI AAGNNNNNCTT 2 cut(s) 231, 263
FaqI GGGAC 1 cut(s) 195
FatI CATG 3 cut(s) 281, 337, 379
FauI CCCGC 2 cut(s) 197, 285
Fnu4HI GCNGC 3 cut(s) 236, 384, 404
Fsp4HI GCNGC 3 cut(s) 236, 384, 404
GlaI GCGC 1 cut(s) 275
GluI GCNGC 3 cut(s) 236, 384, 404
GsuI CTGGAG 2 cut(s) 405, 778
HaeII RGCGCY 1 cut(s) 277
HaeIII GGCC 2 cut(s) 218, 833
HhaI GCGC 1 cut(s) 276
Hin1II CATG 3 cut(s) 285, 341, 383
Hin6I GCGC 1 cut(s) 274
HinP1I GCGC 1 cut(s) 274
HindIII AAGCTT 1 cut(s) 86
HinfI GANTC 6 cut(s) 227, 413, 500, 556, 617, 728
HphI GGTGA 1 cut(s) 119
Hpy166II GTNNAC 1 cut(s) 823
Hpy188I TCNGA 5 cut(s) 271, 561, 622, 684, 714
Hpy188III TCNNGA 6 cut(s) 40, 248, 422, 489, 504, 795
Hpy8I GTNNAC 1 cut(s) 823
HpyAV CCTTC 2 cut(s) 338, 743
HpyCH4III ACNGT 3 cut(s) 130, 147, 259
HpyCH4V TGCA 5 cut(s) 96, 300, 403, 478, 485
HpyF10VI GCNNNNNNNGC 4 cut(s) 24, 81, 210, 380
HpyF3I CTNAG 4 cut(s) 270, 441, 621, 758
Hsp92II CATG 3 cut(s) 285, 341, 383
HspAI GCGC 1 cut(s) 274
Kzo9I GATC 2 cut(s) 244, 780
LmnI GCTCC 3 cut(s) 339, 424, 797
Lsp1109I GCAGC 3 cut(s) 247, 370, 415
LweI GCATC 4 cut(s) 105, 321, 472, 494
MaeIII GTNAC 1 cut(s) 137
MalI GATC 2 cut(s) 246, 782
MboI GATC 2 cut(s) 244, 780
MboII GAAGA 7 cut(s) 476, 613, 626, 652, 697, 712, 755
MlsI TGGCCA 1 cut(s) 833
MluCI AATT 3 cut(s) 473, 630, 784
MluNI TGGCCA 1 cut(s) 833
MlyI GAGTC 1 cut(s) 611
MnlI CCTC 4 cut(s) 13, 203, 436, 766
Mox20I TGGCCA 1 cut(s) 833
Mph1103I ATGCAT 1 cut(s) 487
MscI TGGCCA 1 cut(s) 833
MseI TTAA 3 cut(s) 633, 662, 841
Msp20I TGGCCA 1 cut(s) 833
Mva1269I GAATGC 2 cut(s) 313, 721
MwoI GCNNNNNNNGC 4 cut(s) 24, 81, 210, 380
NcoI CCATGG 1 cut(s) 281
NdeII GATC 2 cut(s) 244, 780
NlaIII CATG 3 cut(s) 285, 341, 383
NmuCI GTSAC 1 cut(s) 137
NsiI ATGCAT 1 cut(s) 487
PaeR7I CTCGAG 1 cut(s) 369
PaqCI CACCTGC 1 cut(s) 80
PctI GAATGC 2 cut(s) 313, 721
PfeI GAWTC 5 cut(s) 227, 413, 500, 556, 728
PkrI GCNGC 3 cut(s) 237, 385, 405
PleI GAGTC 1 cut(s) 611
PpsI GAGTC 1 cut(s) 611
PspPI GGNCC 1 cut(s) 173
PspXI VCTCGAGB 1 cut(s) 369
PstNI CAGNNNCTG 1 cut(s) 328
RsaI GTAC 1 cut(s) 763
RsaNI GTAC 1 cut(s) 762
SaqAI TTAA 3 cut(s) 633, 662, 841
SatI GCNGC 3 cut(s) 236, 384, 404
Sau3AI GATC 2 cut(s) 244, 780
Sau96I GGNCC 1 cut(s) 173
SchI GAGTC 1 cut(s) 611
SetI ASST 8 cut(s) 74, 90, 196, 376, 442, 472, 770, 794
SfaNI GCATC 4 cut(s) 105, 321, 472, 494
Sfr274I CTCGAG 1 cut(s) 369
SinI GGWCC 1 cut(s) 173
SlaI CTCGAG 1 cut(s) 369
SmlI CTYRAG 2 cut(s) 38, 369
SmoI CTYRAG 2 cut(s) 38, 369
Sse9I AATT 3 cut(s) 473, 630, 784
SsiI CCGC 5 cut(s) 27, 161, 204, 278, 725
StyI CCWWGG 2 cut(s) 281, 834
TaaI ACNGT 3 cut(s) 130, 147, 259
TaqI TCGA 3 cut(s) 99, 370, 668
TasI AATT 3 cut(s) 473, 630, 784
TfiI GAWTC 5 cut(s) 227, 413, 500, 556, 728
Tru1I TTAA 3 cut(s) 633, 662, 841
Tru9I TTAA 3 cut(s) 633, 662, 841
TscAI CASTG 2 cut(s) 152, 333
TseFI GTSAC 1 cut(s) 137
TseI GCWGC 3 cut(s) 235, 383, 403
Tsp45I GTSAC 1 cut(s) 137
TspDTI ATGAA 3 cut(s) 368, 513, 762
TspRI CASTG 2 cut(s) 152, 333
VpaK11BI GGWCC 1 cut(s) 173
XhoI CTCGAG 1 cut(s) 369
Zsp2I ATGCAT 1 cut(s) 487
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.