Rroxscaffold_3G00236580

Zinc finger, C3HC4 type (RING finger)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0013457
Physical Location & Seq
Forward (+)
23945182 .. 23946493
1312 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00236580.1

Sequence Viewer

Length: 936 bp
ATGTCGTCGCCACCGGTTCGTCCTCGTCCTCGTGTTATGGTCAATGGAATAAGAAGAATGAGAACCTTTCGTTTCTTCTGGTGCCGCCATTGCCAACATACTGTAAGAATTGCCTCTTCCAACCCATATGGATTTCAATGTCACTATTGCTCTAATGAGCTCAATCATGAGCTCGATGTATTGAGGCCTGCTGCCCTTCAGGCCCTAGAACCTTCCCCGGCAGCCCGCTTACTTCAAAACCTAGCTCTCATCCTCGATCCTTCCCCTCTGAGGCACCACGGACGACTTCGATGGCAAATCGAAACCGACAATGAGCCAGTTGATCATCCACAGTCTTGGATCACCCTCCAGTTCGACAGACCGCCAAGACTTGTAGTTCCCGTACCACAAAATGCCACCCTCGACGAGGATCATACTAATAACGCTGCTACTTTCGATGGAACAATAAACGAGGTTCTGAATGAGCGTCGGGGGCCATCACCGGCGCTCAGTTGGGCAATCGAAGGATTGCCTACGGTGAAAGTCACGGAAGAGGGGTTGTTGAAGGAACCCGGTTGCCCGGTTTGCAAGGAAGGGTTTGTGGTTGGTGGAGAAGTAAGAGAAATGCCATGCAAGCATGTGTATCATTCTGATTGCATAGTCCCTTGGCTGAGCTTACACAATACTTGTCCAGTTTGCCGATATGAGCTAAATAATGGGATCGATCAGTTTGGAGATCGTAATGAAAATTATTACGCAGAGGAGGAAGAAGAGGTGACGTCACGACATAGGTGGTGGAATCAGTTTCTTTCCTTCTGGCCATTTCGTGCATTAGTTCATTGGGGACAAAGTTACCTTGATCACCAAGCAAGGCGTCAAGATAGAACCTGGTGGTCATCCTCTTGGATCGTTTCTATTACTTCTATAGCTCAATTAATAAGTGGCGATGTAAATTAA
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-RING_2

Protein Analysis

311

Amino Acids

35.99

Weight (kDa)

6.27

Isoelectric Point (pI)

65.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RING_2 PF13639 186 - 227 5.5e-13 Ring finger domain
zf-C3HC4_2 PF13923 186 - 226 1.4e-08 Zinc finger, C3HC4 type (RING finger)
zf-RING_11 PF17123 186 - 213 8.8e-08 RING-like zinc finger
zf-C3HC4 PF00097 186 - 226 9.7e-07 Zinc finger, C3HC4 type (RING 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: OG0013457)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G68180
fragaria_vesca FvH4_5g29600 FvH4_5g29600
malus_domestica MD08G1228300.v1.1 MD15G1422200.v1.1
prunus_persica Prupe.1G567500_v2.0.a1 Prupe.1G567500_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0222631
rosa_laevigata RLG00000002042
rosa_multiflora Rmu_sc0001498.1_g000010
rosa_roxburghii Rroxscaffold_3G00236580
rosa_rugosa Rorug07G0211600
rosa_samantha Rh7AG355200 Rh7BG343500 Rh7CG372500 Rh7DG349700
rosa_wichuraiana Rw7G029810 Rw7G030160

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 761
AccB1I GGYRCC 2 cut(s) 81, 273
AciI CCGC 3 cut(s) 85, 226, 362
AclWI GGATC 5 cut(s) 251, 347, 417, 707, 893
AcoI YGGCCR 1 cut(s) 797
AcuI CTGAAG 1 cut(s) 182
AcyI GRCGYC 2 cut(s) 758, 853
AfaI GTAC 1 cut(s) 384
AfiI CCNNNNNNNGG 2 cut(s) 270, 406
AgeI ACCGGT 1 cut(s) 13
AgsI TTSAA 3 cut(s) 137, 236, 544
AjnI CCWGG 1 cut(s) 866
AluBI AGCT 6 cut(s) 160, 172, 245, 654, 688, 908
AluI AGCT 6 cut(s) 160, 172, 245, 654, 688, 908
Alw21I GWGCWC 2 cut(s) 162, 174
AlwI GGATC 5 cut(s) 251, 347, 417, 707, 893
AoxI GGCC 4 cut(s) 185, 201, 473, 797
ApeKI GCWGC 3 cut(s) 191, 221, 425
AseI ATTAAT 1 cut(s) 914
AsiGI ACCGGT 1 cut(s) 13
AspLEI GCGC 1 cut(s) 487
AspS9I GGNCC 2 cut(s) 202, 473
AsuC2I CCSGG 3 cut(s) 218, 552, 560
AsuHPI GGTGA 5 cut(s) 334, 471, 529, 766, 833
BalI TGGCCA 1 cut(s) 799
BanI GGYRCC 2 cut(s) 81, 273
BanII GRGCYC 2 cut(s) 162, 174
BauI CACGAG 1 cut(s) 30
Bbv12I GWGCWC 2 cut(s) 162, 174
BbvI GCAGC 3 cut(s) 178, 233, 412
BccI CCATC 3 cut(s) 285, 431, 484
BciT130I CCWGG 1 cut(s) 868
BclI TGATCA 2 cut(s) 322, 838
BcnI CCSGG 3 cut(s) 218, 552, 560
BfaI CTAG 2 cut(s) 206, 242
BfmI CTRYAG 1 cut(s) 903
BfoI RGCGCY 1 cut(s) 488
BglI GCCNNNNNGGC 1 cut(s) 200
BisI GCNGC 4 cut(s) 85, 192, 222, 426
BlpI GCTNAGC 1 cut(s) 650
BlsI GCNGC 4 cut(s) 86, 193, 223, 427
Bme1390I CCNGG 4 cut(s) 218, 552, 560, 868
BmgT120I GGNCC 2 cut(s) 202, 473
BmiI GGNNCC 4 cut(s) 83, 275, 474, 549
BmrFI CCNGG 4 cut(s) 218, 552, 560, 868
BpmI CTGGAG 1 cut(s) 332
Bpu1102I GCTNAGC 1 cut(s) 650
BpuMI CCSGG 3 cut(s) 218, 552, 560
Bsa29I ATCGAT 1 cut(s) 702
BsaHI GRCGYC 2 cut(s) 758, 853
BsaJI CCNNGG 3 cut(s) 216, 277, 644
BsaWI WCCGGW 1 cut(s) 13
Bsc4I CCNNNNNNNGG 2 cut(s) 270, 406
Bse118I RCCGGY 2 cut(s) 13, 481
Bse1I ACTGG 3 cut(s) 317, 349, 671
Bse3DI GCAATG 1 cut(s) 88
BseBI CCWGG 1 cut(s) 868
BseCI ATCGAT 1 cut(s) 702
BseDI CCNNGG 3 cut(s) 216, 277, 644
BseGI GGATG 3 cut(s) 249, 325, 875
BseLI CCNNNNNNNGG 2 cut(s) 270, 406
BseMI GCAATG 1 cut(s) 88
BseMII CTCAG 3 cut(s) 260, 502, 641
BseNI ACTGG 3 cut(s) 317, 349, 671
BseRI GAGGAG 1 cut(s) 755
BseXI GCAGC 3 cut(s) 178, 233, 412
BshFI GGCC 4 cut(s) 187, 203, 475, 799
BshNI GGYRCC 2 cut(s) 81, 273
BshTI ACCGGT 1 cut(s) 13
BshVI ATCGAT 1 cut(s) 702
BsiHKAI GWGCWC 2 cut(s) 162, 174
BsiSI CCGG 5 cut(s) 14, 218, 482, 552, 560
BslFI GGGAC 2 cut(s) 626, 837
BslI CCNNNNNNNGG 2 cut(s) 270, 406
BsmFI GGGAC 2 cut(s) 626, 837
BsnI GGCC 4 cut(s) 187, 203, 475, 799
Bsp1286I GDGCHC 2 cut(s) 162, 174
Bsp143I GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
Bsp1720I GCTNAGC 1 cut(s) 650
BspACI CCGC 3 cut(s) 85, 226, 362
BspANI GGCC 4 cut(s) 187, 203, 475, 799
BspCNI CTCAG 3 cut(s) 261, 501, 642
BspDI ATCGAT 1 cut(s) 702
BspHI TCATGA 1 cut(s) 166
BspLI GGNNCC 4 cut(s) 83, 275, 474, 549
BspPI GGATC 5 cut(s) 251, 347, 417, 707, 893
BspT107I GGYRCC 2 cut(s) 81, 273
BsrDI GCAATG 1 cut(s) 88
BsrFI RCCGGY 2 cut(s) 13, 481
BsrI ACTGG 3 cut(s) 317, 349, 671
BssAI RCCGGY 2 cut(s) 13, 481
BssECI CCNNGG 3 cut(s) 216, 277, 644
BssMI GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
BssNI GRCGYC 2 cut(s) 758, 853
BssSI CACGAG 1 cut(s) 30
BssT1I CCWWGG 1 cut(s) 644
Bst2BI CACGAG 1 cut(s) 30
Bst2UI CCWGG 1 cut(s) 868
Bst4CI ACNGT 3 cut(s) 103, 333, 517
Bst6I CTCTTC 3 cut(s) 121, 525, 744
BstACI GRCGYC 2 cut(s) 758, 853
BstC8I GCNNGC 3 cut(s) 189, 226, 614
BstDEI CTNAG 3 cut(s) 269, 488, 650
BstDSI CCRYGG 1 cut(s) 277
BstENI CCTNNNNNAGG 1 cut(s) 404
BstF5I GGATG 3 cut(s) 249, 325, 875
BstH2I RGCGCY 1 cut(s) 488
BstHHI GCGC 1 cut(s) 487
BstKTI GATC 9 cut(s) 259, 325, 342, 412, 702, 706, 718, 841, 888
BstMBI GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
BstMWI GCNNNNNNNGC 5 cut(s) 90, 200, 472, 564, 613
BstNI CCWGG 1 cut(s) 868
BstNSI RCATGY 1 cut(s) 620
BstSCI CCNGG 4 cut(s) 216, 550, 558, 866
BstSFI CTRYAG 1 cut(s) 903
BstV1I GCAGC 3 cut(s) 178, 233, 412
BstXI CCANNNNNNTGG 1 cut(s) 336
Bsu15I ATCGAT 1 cut(s) 702
BsuRI GGCC 4 cut(s) 187, 203, 475, 799
BsuTUI ATCGAT 1 cut(s) 702
BtgI CCRYGG 1 cut(s) 277
BtsCI GGATG 3 cut(s) 249, 325, 875
Cac8I GCNNGC 3 cut(s) 189, 226, 614
CciI TCATGA 1 cut(s) 166
CfoI GCGC 1 cut(s) 487
Cfr10I RCCGGY 2 cut(s) 13, 481
Cfr13I GGNCC 2 cut(s) 202, 473
ClaI ATCGAT 1 cut(s) 702
CseI GACGC 2 cut(s) 455, 842
CsiI ACCWGGT 1 cut(s) 866
Csp6I GTAC 1 cut(s) 383
CspAI ACCGGT 1 cut(s) 13
CviAII CATG 3 cut(s) 167, 609, 617
CviQI GTAC 1 cut(s) 383
DdeI CTNAG 3 cut(s) 269, 488, 650
DpnI GATC 9 cut(s) 258, 324, 341, 411, 701, 705, 717, 840, 887
DpnII GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
EaeI YGGCCR 1 cut(s) 797
Eam1104I CTCTTC 3 cut(s) 121, 525, 744
EarI CTCTTC 3 cut(s) 121, 525, 744
Ecl136II GAGCTC 2 cut(s) 160, 172
Eco130I CCWWGG 1 cut(s) 644
Eco147I AGGCCT 1 cut(s) 187
Eco24I GRGCYC 2 cut(s) 162, 174
Eco53kI GAGCTC 2 cut(s) 160, 172
Eco57I CTGAAG 1 cut(s) 182
EcoICRI GAGCTC 2 cut(s) 160, 172
EcoNI CCTNNNNNAGG 1 cut(s) 404
EcoO109I RGGNCCY 1 cut(s) 202
EcoRII CCWGG 1 cut(s) 866
EcoT14I CCWWGG 1 cut(s) 644
EcoT38I GRGCYC 2 cut(s) 162, 174
ErhI CCWWGG 1 cut(s) 644
FaeI CATG 3 cut(s) 170, 612, 620
FaqI GGGAC 2 cut(s) 626, 837
FatI CATG 3 cut(s) 166, 608, 616
FauI CCCGC 1 cut(s) 233
FauNDI CATATG 1 cut(s) 127
FbaI TGATCA 2 cut(s) 322, 838
Fnu4HI GCNGC 4 cut(s) 85, 192, 222, 426
FokI GGATG 3 cut(s) 236, 312, 862
FriOI GRGCYC 2 cut(s) 162, 174
Fsp4HI GCNGC 4 cut(s) 85, 192, 222, 426
FspBI CTAG 2 cut(s) 206, 242
GlaI GCGC 1 cut(s) 486
GluI GCNGC 4 cut(s) 85, 192, 222, 426
GsuI CTGGAG 1 cut(s) 332
HaeII RGCGCY 1 cut(s) 488
HaeIII GGCC 4 cut(s) 187, 203, 475, 799
HapII CCGG 5 cut(s) 14, 218, 482, 552, 560
HgaI GACGC 2 cut(s) 455, 842
HhaI GCGC 1 cut(s) 487
Hin1I GRCGYC 2 cut(s) 758, 853
Hin1II CATG 3 cut(s) 170, 612, 620
Hin6I GCGC 1 cut(s) 485
HinP1I GCGC 1 cut(s) 485
HinfI GANTC 1 cut(s) 778
HpaII CCGG 5 cut(s) 14, 218, 482, 552, 560
HphI GGTGA 5 cut(s) 334, 471, 529, 766, 833
Hpy188I TCNGA 3 cut(s) 270, 459, 631
Hpy188III TCNNGA 3 cut(s) 167, 762, 857
Hpy99I CGWCG 3 cut(s) 10, 407, 471
HpyAV CCTTC 7 cut(s) 206, 222, 270, 497, 538, 566, 802
HpyCH4III ACNGT 3 cut(s) 103, 333, 517
HpyCH4IV ACGT 1 cut(s) 758
HpyCH4V TGCA 4 cut(s) 567, 612, 636, 809
HpyF10VI GCNNNNNNNGC 5 cut(s) 90, 200, 472, 564, 613
HpyF3I CTNAG 3 cut(s) 269, 488, 650
HpySE526I ACGT 1 cut(s) 758
Hsp92I GRCGYC 2 cut(s) 758, 853
Hsp92II CATG 3 cut(s) 170, 612, 620
HspAI GCGC 1 cut(s) 485
Ksp22I TGATCA 2 cut(s) 322, 838
Kzo9I GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
Lsp1109I GCAGC 3 cut(s) 178, 233, 412
MabI ACCWGGT 1 cut(s) 866
MaeI CTAG 2 cut(s) 206, 242
MaeII ACGT 1 cut(s) 758
MaeIII GTNAC 5 cut(s) 140, 523, 754, 759, 830
MalI GATC 9 cut(s) 258, 324, 341, 411, 701, 705, 717, 840, 887
MboI GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
MboII GAAGA 6 cut(s) 66, 67, 108, 542, 758, 761
MhlI GDGCHC 2 cut(s) 162, 174
MlsI TGGCCA 1 cut(s) 799
MluCI AATT 4 cut(s) 108, 727, 911, 931
MluNI TGGCCA 1 cut(s) 799
MmeI TCCRAC 1 cut(s) 144
Mox20I TGGCCA 1 cut(s) 799
MscI TGGCCA 1 cut(s) 799
MseI TTAA 2 cut(s) 914, 934
Msp20I TGGCCA 1 cut(s) 799
MspI CCGG 5 cut(s) 14, 218, 482, 552, 560
MspR9I CCNGG 4 cut(s) 218, 552, 560, 868
MvaI CCWGG 1 cut(s) 868
MwoI GCNNNNNNNGC 5 cut(s) 90, 200, 472, 564, 613
NciI CCSGG 3 cut(s) 218, 552, 560
NdeI CATATG 1 cut(s) 127
NdeII GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
NlaIII CATG 3 cut(s) 170, 612, 620
NlaIV GGNNCC 4 cut(s) 83, 275, 474, 549
NmuCI GTSAC 4 cut(s) 140, 523, 754, 759
NspI RCATGY 1 cut(s) 620
PagI TCATGA 1 cut(s) 166
PceI AGGCCT 1 cut(s) 187
PfeI GAWTC 1 cut(s) 778
PinAI ACCGGT 1 cut(s) 13
PkrI GCNGC 4 cut(s) 86, 193, 223, 427
PshBI ATTAAT 1 cut(s) 914
Psp124BI GAGCTC 2 cut(s) 162, 174
Psp6I CCWGG 1 cut(s) 866
PspGI CCWGG 1 cut(s) 866
PspN4I GGNNCC 4 cut(s) 83, 275, 474, 549
PspPI GGNCC 2 cut(s) 202, 473
RsaI GTAC 1 cut(s) 384
RsaNI GTAC 1 cut(s) 383
SacI GAGCTC 2 cut(s) 162, 174
SaqAI TTAA 2 cut(s) 914, 934
SatI GCNGC 4 cut(s) 85, 192, 222, 426
Sau3AI GATC 9 cut(s) 256, 322, 339, 409, 699, 703, 715, 838, 885
Sau96I GGNCC 2 cut(s) 202, 473
ScrFI CCNGG 4 cut(s) 218, 552, 560, 868
SduI GDGCHC 2 cut(s) 162, 174
SexAI ACCWGGT 1 cut(s) 866
SfcI CTRYAG 1 cut(s) 903
SgrAI CRCCGGYG 1 cut(s) 481
Sse9I AATT 4 cut(s) 108, 727, 911, 931
SseBI AGGCCT 1 cut(s) 187
SsiI CCGC 3 cut(s) 85, 226, 362
SspMI CTAG 2 cut(s) 206, 242
SstI GAGCTC 2 cut(s) 162, 174
StuI AGGCCT 1 cut(s) 187
StyD4I CCNGG 4 cut(s) 216, 550, 558, 866
StyI CCWWGG 1 cut(s) 644
TaaI ACNGT 3 cut(s) 103, 333, 517
TaiI ACGT 1 cut(s) 761
TaqI TCGA 9 cut(s) 174, 255, 289, 300, 354, 402, 435, 501, 702
TasI AATT 4 cut(s) 108, 727, 911, 931
TauI GCSGC 1 cut(s) 87
TfiI GAWTC 1 cut(s) 778
Tru1I TTAA 2 cut(s) 914, 934
Tru9I TTAA 2 cut(s) 914, 934
TseFI GTSAC 4 cut(s) 140, 523, 754, 759
TseI GCWGC 3 cut(s) 191, 221, 425
Tsp45I GTSAC 4 cut(s) 140, 523, 754, 759
TspDTI ATGAA 2 cut(s) 738, 806
TspGWI ACGGA 2 cut(s) 294, 542
VspI ATTAAT 1 cut(s) 914
XagI CCTNNNNNAGG 1 cut(s) 404
XceI RCATGY 1 cut(s) 620
XspI CTAG 2 cut(s) 206, 242
ZraI GACGTC 1 cut(s) 759
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.