Rh6BG485400

RNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0016143
Physical Location & Seq
Reverse (-)
69011776 .. 69017181
5406 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG485400.1

Sequence Viewer

Length: 852 bp
ATGGCAGATTCCAAATCAACAGATGCGTTCCTTCCCGGTTTCCGGTTCCACCCTTCGGAACAGCAGCTCCTCTACTACTATCTCTCAAACAAGAAAGCCAACCCGGCCATACCCGGCGGCTACAATACGATCAGAGAGCTGTCAGACTTACGGGGGCGCGAACCGTCCGAGTTACAGAACTGGAGTTGCTATTCGTACGGTTACAAAGGGAGGAAGAGGCACTGGTACTTTTATACAGCTGGGGTTTCGGCGGAGGAGAAAAATACCAAGCAGGGATGTTGGAAGAGGAAAGGTAAGGTTAGGGACGTGTTCAGCCGCCAAGGGGTTGTTTTGGGCACCAGGACTAGCTTTGTCTATTACGACGGGTCGCCCGACACAGCCTCACCTAATGCTTGGGGTTCTTTCGTTCTATGCCGAATATTTTCAAGATCAGATAGTGATTTCAATTCCTGCGCTAATAATGATGAAGTACTCATGCCCAAGCCTGAGACTGTTTCTACAACAAGTAATGAACAGGCACGAGTTTCACAATCGAGGCCAGCTGCTGCCGCTACTCCTAGTCCCATCCAAGCATCTGTTCCACCTTCAAGTTTACAACAGTTTTTCGATTTAACAGGACCTTTGGTCATACTGCCGTCAAGGCCTGCTCAAGGACCAAGGCCCAGAGGTGCTTCGATGCCATACTATGGTGGTCCAATGATCAGGCAAGGCCAGCAGCCGCCAGTGCCACCACCCCGTATGCTTGGTGAGGAATTGTTTCCTCTCGTTGAAATGTGGGAGAAGGACAAGGCAGCTAAGGTGACAGGGGCATGCTTCTGGAGATGGACAATCCTGAGATATTACATTTGCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03018 map03013 map03015 map03018
Pfam Domains
Protein Families
PABP

Protein Analysis

283

Amino Acids

31.84

Weight (kDa)

9.39

Isoelectric Point (pI)

61.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAM PF02365 12 - 126 4.2e-17 No apical meristem (NAM) protein
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: OG0016143)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G19350
fragaria_vesca FvH4_2g34070
rosa_chinensis RchiOBHm_Chr6g0308281
rosa_laevigata RLG00000010651
rosa_multiflora Rmu_sc0005523.1_g000005 Rmu_sc0013917.1_g000002 Rmu_ssc0000355.1_g000010 Rmu_ssc0000355.1_g000012
rosa_roxburghii Rroxscaffold_7G00160290
rosa_samantha Rh6AG474800 Rh6BG485400 Rh6CG490500 Rh6DG476900 Rh6DG477100
rosa_wichuraiana Rw6G041410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 335
AccB7I CCANNNNNTGG 1 cut(s) 686
AccII CGCG 1 cut(s) 159
AciI CCGC 5 cut(s) 117, 251, 316, 549, 719
AcoI YGGCCR 1 cut(s) 105
AfaI GTAC 3 cut(s) 197, 227, 471
AfiI CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
AflIII ACRYGT 1 cut(s) 306
AgsI TTSAA 4 cut(s) 426, 445, 588, 770
AhdI GACNNNNNGTC 1 cut(s) 623
AjiI CACGTC 1 cut(s) 307
AjnI CCWGG 1 cut(s) 338
AjuI GAANNNNNNNTTGG 2 cut(s) 561, 593
AloI GAACNNNNNNTCC 2 cut(s) 51, 83
AluBI AGCT 6 cut(s) 67, 139, 239, 348, 542, 794
AluI AGCT 6 cut(s) 67, 139, 239, 348, 542, 794
Alw26I GTCTC 1 cut(s) 482
AlwNI CAGNNNCTG 1 cut(s) 545
AoxI GGCC 5 cut(s) 105, 536, 641, 659, 709
ApeKI GCWGC 5 cut(s) 64, 542, 545, 715, 791
Asp700I GAANNNNTTC 2 cut(s) 421, 756
AspLEI GCGC 2 cut(s) 159, 455
AspS9I GGNCC 4 cut(s) 617, 653, 660, 692
AsuC2I CCSGG 3 cut(s) 36, 104, 114
AsuHPI GGTGA 3 cut(s) 375, 758, 811
AvaII GGWCC 3 cut(s) 617, 653, 692
BaeGI GKGCMC 1 cut(s) 338
BanI GGYRCC 1 cut(s) 335
BauI CACGAG 1 cut(s) 519
BbvI GCAGC 5 cut(s) 76, 529, 532, 727, 803
BccI CCATC 2 cut(s) 572, 816
BceAI ACGGC 1 cut(s) 619
BciT130I CCWGG 1 cut(s) 340
BclI TGATCA 1 cut(s) 699
BcnI CCSGG 3 cut(s) 36, 104, 114
BcoDI GTCTC 1 cut(s) 482
BfaI CTAG 3 cut(s) 345, 558, 850
BglI GCCNNNNNGGC 2 cut(s) 104, 640
BisI GCNGC 9 cut(s) 65, 118, 316, 543, 546, 549, 716, 719, 792
BlsI GCNGC 9 cut(s) 66, 119, 317, 544, 547, 550, 717, 720, 793
BmcAI AGTACT 1 cut(s) 471
Bme1390I CCNGG 4 cut(s) 36, 104, 114, 340
Bme18I GGWCC 3 cut(s) 617, 653, 692
BmeRI GACNNNNNGTC 1 cut(s) 623
BmgBI CACGTC 1 cut(s) 307
BmgT120I GGNCC 4 cut(s) 617, 653, 660, 692
BmiI GGNNCC 2 cut(s) 47, 337
BmrFI CCNGG 4 cut(s) 36, 104, 114, 340
BmsI GCATC 3 cut(s) 13, 581, 666
BpmI CTGGAG 2 cut(s) 202, 838
Bpu10I CCTNAGC 1 cut(s) 795
BpuEI CTTGAG 1 cut(s) 633
BpuMI CCSGG 3 cut(s) 36, 104, 114
BsaJI CCNNGG 2 cut(s) 319, 656
BsaWI WCCGGW 1 cut(s) 42
BsaXI ACNNNNNCTCC 2 cut(s) 51, 81
Bsc4I CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
Bse1I ACTGG 3 cut(s) 185, 227, 722
BseBI CCWGG 1 cut(s) 340
BseDI CCNNGG 2 cut(s) 319, 656
BseGI GGATG 2 cut(s) 281, 564
BseLI CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
BseMII CTCAG 2 cut(s) 477, 824
BseNI ACTGG 3 cut(s) 185, 227, 722
BseRI GAGGAG 2 cut(s) 59, 269
BseSI GKGCMC 1 cut(s) 338
BseXI GCAGC 5 cut(s) 76, 529, 532, 727, 803
BseYI CCCAGC 1 cut(s) 239
Bsh1236I CGCG 1 cut(s) 159
BshFI GGCC 5 cut(s) 107, 538, 643, 661, 711
BshNI GGYRCC 1 cut(s) 335
BsiSI CCGG 4 cut(s) 36, 43, 104, 114
BsiWI CGTACG 1 cut(s) 195
BslFI GGGAC 2 cut(s) 317, 546
BslI CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
BsmAI GTCTC 1 cut(s) 482
BsmFI GGGAC 2 cut(s) 317, 546
BsnI GGCC 5 cut(s) 107, 538, 643, 661, 711
Bsp1286I GDGCHC 1 cut(s) 338
Bsp143I GATC 3 cut(s) 129, 428, 699
BspACI CCGC 5 cut(s) 117, 251, 316, 549, 719
BspANI GGCC 5 cut(s) 107, 538, 643, 661, 711
BspCNI CTCAG 2 cut(s) 478, 825
BspFNI CGCG 1 cut(s) 159
BspLI GGNNCC 2 cut(s) 47, 337
BspT107I GGYRCC 1 cut(s) 335
BsrI ACTGG 3 cut(s) 185, 227, 722
BssECI CCNNGG 2 cut(s) 319, 656
BssMI GATC 3 cut(s) 129, 428, 699
BssSI CACGAG 1 cut(s) 519
BssT1I CCWWGG 2 cut(s) 319, 656
Bst2BI CACGAG 1 cut(s) 519
Bst2UI CCWGG 1 cut(s) 340
Bst4CI ACNGT 4 cut(s) 165, 200, 493, 600
Bst6I CTCTTC 2 cut(s) 209, 278
BstC8I GCNNGC 4 cut(s) 540, 645, 713, 811
BstDEI CTNAG 3 cut(s) 486, 795, 833
BstENI CCTNNNNNAGG 1 cut(s) 648
BstF5I GGATG 2 cut(s) 281, 564
BstFNI CGCG 1 cut(s) 159
BstHHI GCGC 2 cut(s) 159, 455
BstKTI GATC 3 cut(s) 132, 431, 702
BstMAI GTCTC 1 cut(s) 482
BstMBI GATC 3 cut(s) 129, 428, 699
BstMWI GCNNNNNNNGC 5 cut(s) 104, 548, 640, 712, 724
BstNI CCWGG 1 cut(s) 340
BstNSI RCATGY 1 cut(s) 813
BstSCI CCNGG 4 cut(s) 34, 102, 112, 338
BstSLI GKGCMC 1 cut(s) 338
BstUI CGCG 1 cut(s) 159
BstV1I GCAGC 5 cut(s) 76, 529, 532, 727, 803
BsuRI GGCC 5 cut(s) 107, 538, 643, 661, 711
BtrI CACGTC 1 cut(s) 307
BtsCI GGATG 2 cut(s) 281, 564
BtsIMutI CAGTG 2 cut(s) 220, 729
Cac8I GCNNGC 4 cut(s) 540, 645, 713, 811
CaiI CAGNNNCTG 1 cut(s) 545
CfoI GCGC 2 cut(s) 159, 455
Cfr13I GGNCC 4 cut(s) 617, 653, 660, 692
Csp6I GTAC 3 cut(s) 196, 226, 470
CviAII CATG 2 cut(s) 475, 810
CviQI GTAC 3 cut(s) 196, 226, 470
DdeI CTNAG 3 cut(s) 486, 795, 833
DpnI GATC 3 cut(s) 131, 430, 701
DpnII GATC 3 cut(s) 129, 428, 699
DriI GACNNNNNGTC 1 cut(s) 623
EaeI YGGCCR 1 cut(s) 105
Eam1104I CTCTTC 2 cut(s) 209, 278
Eam1105I GACNNNNNGTC 1 cut(s) 623
EarI CTCTTC 2 cut(s) 209, 278
EciI GGCGGA 1 cut(s) 266
Eco130I CCWWGG 2 cut(s) 319, 656
Eco147I AGGCCT 1 cut(s) 643
Eco47I GGWCC 3 cut(s) 617, 653, 692
EcoNI CCTNNNNNAGG 1 cut(s) 648
EcoO109I RGGNCCY 1 cut(s) 617
EcoRII CCWGG 1 cut(s) 338
EcoT14I CCWWGG 2 cut(s) 319, 656
ErhI CCWWGG 2 cut(s) 319, 656
FaeI CATG 2 cut(s) 478, 813
FaiI YATR 9 cut(s) 110, 234, 412, 476, 629, 682, 687, 740, 811
FaqI GGGAC 2 cut(s) 317, 546
FatI CATG 2 cut(s) 474, 809
FbaI TGATCA 1 cut(s) 699
Fnu4HI GCNGC 9 cut(s) 65, 118, 316, 543, 546, 549, 716, 719, 792
FokI GGATG 2 cut(s) 288, 551
Fsp4HI GCNGC 9 cut(s) 65, 118, 316, 543, 546, 549, 716, 719, 792
FspBI CTAG 3 cut(s) 345, 558, 850
GlaI GCGC 2 cut(s) 158, 454
GluI GCNGC 9 cut(s) 65, 118, 316, 543, 546, 549, 716, 719, 792
GsaI CCCAGC 1 cut(s) 243
GsuI CTGGAG 2 cut(s) 202, 838
HaeIII GGCC 5 cut(s) 107, 538, 643, 661, 711
HapII CCGG 4 cut(s) 36, 43, 104, 114
HhaI GCGC 2 cut(s) 159, 455
Hin1II CATG 2 cut(s) 478, 813
Hin6I GCGC 2 cut(s) 157, 453
HinP1I GCGC 2 cut(s) 157, 453
HinfI GANTC 1 cut(s) 8
HpaII CCGG 4 cut(s) 36, 43, 104, 114
HphI GGTGA 3 cut(s) 375, 758, 811
Hpy166II GTNNAC 1 cut(s) 593
Hpy188I TCNGA 5 cut(s) 58, 134, 145, 169, 433
Hpy188III TCNNGA 3 cut(s) 426, 817, 832
Hpy8I GTNNAC 1 cut(s) 593
Hpy99I CGWCG 1 cut(s) 365
HpyAV CCTTC 4 cut(s) 41, 63, 594, 775
HpyCH4III ACNGT 4 cut(s) 165, 200, 493, 600
HpyCH4IV ACGT 1 cut(s) 306
HpyF10VI GCNNNNNNNGC 5 cut(s) 104, 548, 640, 712, 724
HpyF3I CTNAG 3 cut(s) 486, 795, 833
HpySE526I ACGT 1 cut(s) 306
Hsp92II CATG 2 cut(s) 478, 813
HspAI GCGC 2 cut(s) 157, 453
Ksp22I TGATCA 1 cut(s) 699
Kzo9I GATC 3 cut(s) 129, 428, 699
LmnI GCTCC 1 cut(s) 72
Lsp1109I GCAGC 5 cut(s) 76, 529, 532, 727, 803
LweI GCATC 3 cut(s) 13, 581, 666
MaeI CTAG 3 cut(s) 345, 558, 850
MaeII ACGT 1 cut(s) 306
MaeIII GTNAC 3 cut(s) 171, 200, 799
MalI GATC 3 cut(s) 131, 430, 701
MboI GATC 3 cut(s) 129, 428, 699
MboII GAAGA 2 cut(s) 226, 295
MhlI GDGCHC 1 cut(s) 338
MluCI AATT 2 cut(s) 445, 752
MmeI TCCRAC 1 cut(s) 260
MroXI GAANNNNTTC 2 cut(s) 421, 756
MseI TTAA 1 cut(s) 611
MspA1I CMGCKG 2 cut(s) 239, 542
MspI CCGG 4 cut(s) 36, 43, 104, 114
MspR9I CCNGG 4 cut(s) 36, 104, 114, 340
MvaI CCWGG 1 cut(s) 340
MvnI CGCG 1 cut(s) 159
MwoI GCNNNNNNNGC 5 cut(s) 104, 548, 640, 712, 724
NciI CCSGG 3 cut(s) 36, 104, 114
NdeII GATC 3 cut(s) 129, 428, 699
NlaIII CATG 2 cut(s) 478, 813
NlaIV GGNNCC 2 cut(s) 47, 337
NmuCI GTSAC 1 cut(s) 799
NspI RCATGY 1 cut(s) 813
PaeI GCATGC 1 cut(s) 813
PceI AGGCCT 1 cut(s) 643
PcsI WCGNNNNNNNCGW 1 cut(s) 369
PdmI GAANNNNTTC 2 cut(s) 421, 756
PfeI GAWTC 1 cut(s) 8
Pfl23II CGTACG 1 cut(s) 195
PflMI CCANNNNNTGG 1 cut(s) 686
PkrI GCNGC 9 cut(s) 66, 119, 317, 544, 547, 550, 717, 720, 793
PpuMI RGGWCCY 1 cut(s) 617
Psp5II RGGWCCY 1 cut(s) 617
Psp6I CCWGG 1 cut(s) 338
PspFI CCCAGC 1 cut(s) 239
PspGI CCWGG 1 cut(s) 338
PspLI CGTACG 1 cut(s) 195
PspN4I GGNNCC 2 cut(s) 47, 337
PspPI GGNCC 4 cut(s) 617, 653, 660, 692
PspPPI RGGWCCY 1 cut(s) 617
PstNI CAGNNNCTG 1 cut(s) 545
PvuII CAGCTG 2 cut(s) 239, 542
RsaI GTAC 3 cut(s) 197, 227, 471
RsaNI GTAC 3 cut(s) 196, 226, 470
SaqAI TTAA 1 cut(s) 611
SatI GCNGC 9 cut(s) 65, 118, 316, 543, 546, 549, 716, 719, 792
Sau3AI GATC 3 cut(s) 129, 428, 699
Sau96I GGNCC 4 cut(s) 617, 653, 660, 692
ScaI AGTACT 1 cut(s) 471
ScrFI CCNGG 4 cut(s) 36, 104, 114, 340
SduI GDGCHC 1 cut(s) 338
SfaNI GCATC 3 cut(s) 13, 581, 666
SinI GGWCC 3 cut(s) 617, 653, 692
SmlI CTYRAG 1 cut(s) 648
SmoI CTYRAG 1 cut(s) 648
SphI GCATGC 1 cut(s) 813
Sse9I AATT 2 cut(s) 445, 752
SseBI AGGCCT 1 cut(s) 643
SsiI CCGC 5 cut(s) 117, 251, 316, 549, 719
SspI AATATT 1 cut(s) 420
SspMI CTAG 3 cut(s) 345, 558, 850
StuI AGGCCT 1 cut(s) 643
StyD4I CCNGG 4 cut(s) 34, 102, 112, 338
StyI CCWWGG 2 cut(s) 319, 656
TaaI ACNGT 4 cut(s) 165, 200, 493, 600
TaiI ACGT 1 cut(s) 309
TaqI TCGA 3 cut(s) 533, 606, 674
TasI AATT 2 cut(s) 445, 752
TatI WGTACW 1 cut(s) 469
TauI GCSGC 4 cut(s) 120, 318, 551, 721
TfiI GAWTC 1 cut(s) 8
Tru1I TTAA 1 cut(s) 611
Tru9I TTAA 1 cut(s) 611
TscAI CASTG 2 cut(s) 227, 729
TseFI GTSAC 1 cut(s) 799
TseI GCWGC 5 cut(s) 64, 542, 545, 715, 791
Tsp45I GTSAC 1 cut(s) 799
TspDTI ATGAA 2 cut(s) 480, 525
TspRI CASTG 2 cut(s) 227, 729
Van91I CCANNNNNTGG 1 cut(s) 686
VpaK11BI GGWCC 3 cut(s) 617, 653, 692
XagI CCTNNNNNAGG 1 cut(s) 648
XceI RCATGY 1 cut(s) 813
XmnI GAANNNNTTC 2 cut(s) 421, 756
XspI CTAG 3 cut(s) 345, 558, 850
ZrmI AGTACT 1 cut(s) 471
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.