Rh6CG490500

RNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0016143
Physical Location & Seq
Reverse (-)
65773817 .. 65779058
5242 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG490500.1

Sequence Viewer

Length: 804 bp
ATGGCAGATTCCAAATCAACAGATGCGTTCCTTCCCGGTTTCCGGTTCCACCCTTCGGAACAGCAGCTCCTCTACTACTATCTCTCAAACAAGAAAGCCAACCCGGCCATACCCGGCGGCTACAATACGATCAGAGAGCTGTCAGACTTACGGGGGCGCGAACCGTCCGAGTTACAGAACTGGAGTTGCTATTCGTACGGTTACAAAGGGAGGAAGAGGCACTGGTACTTTTATACAGCTGGGGTTTCGGCGGAGGAGAAAAATACCAAGCAGGGATGTTGGAAGAGGAAAGGTAAGGTTAGGGACGTGTTCAGCCGCCAAGGGGTTGTTTTGGGCACCAGGACTAGCTTTGTCTATTACGACGGGTCGCCCGACACAGCCTCACCTAATGCTTGGGGTTCTTTCGTTCTATGCCGAATATTTTCAAGATCAGATAGTGATTTCAATTCCTGCGCTAATAATGATGAAGTACTCATGCCCAAGCCTGAGACTGTTTCTACAACAAGTAATGAACAGGCACGAGTTTCACAATCGAGGCCAGCTGCTGCCGCTACTCCTAGTCCCATCCAAGCATCTGTTCCACCTTCAAGTTTACAACAGTTTTTCGATTTAACAGGACCTTTGGTCATACTGCCGTCAAGGCCTGCTCAAGGACCAAGGCCCAGAGGTGCTTCGATGCCATACTATGGTGGTCCAATGATCAGGCAAGGCCAGCAGCCGCCAGTGCCACCACCCCGTGTCAGTCCAAAACAAAGAACGTACTTTCAGTCTTTCATCCCCATGTCAGCGCAAATATTCAAATGA
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

267

Amino Acids

29.85

Weight (kDa)

9.74

Isoelectric Point (pI)

64.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAM PF02365 12 - 126 3.7e-17 No apical meristem (NAM) protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AdeI CACNNNGTG 1 cut(s) 737
AfaI GTAC 4 cut(s) 197, 227, 471, 761
AfiI CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
AflIII ACRYGT 1 cut(s) 306
AgsI TTSAA 4 cut(s) 426, 445, 588, 799
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 5 cut(s) 67, 139, 239, 348, 542
AluI AGCT 5 cut(s) 67, 139, 239, 348, 542
Alw26I GTCTC 1 cut(s) 482
AlwNI CAGNNNCTG 1 cut(s) 545
AoxI GGCC 5 cut(s) 105, 536, 641, 659, 709
ApeKI GCWGC 4 cut(s) 64, 542, 545, 715
Asp700I GAANNNNTTC 1 cut(s) 421
AspLEI GCGC 3 cut(s) 159, 455, 790
AspS9I GGNCC 4 cut(s) 617, 653, 660, 692
AsuC2I CCSGG 3 cut(s) 36, 104, 114
AsuHPI GGTGA 1 cut(s) 375
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 4 cut(s) 76, 529, 532, 727
BccI CCATC 1 cut(s) 572
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 2 cut(s) 345, 558
BglI GCCNNNNNGGC 2 cut(s) 104, 640
BisI GCNGC 8 cut(s) 65, 118, 316, 543, 546, 549, 716, 719
BlsI GCNGC 8 cut(s) 66, 119, 317, 544, 547, 550, 717, 720
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 1 cut(s) 202
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 3 cut(s) 281, 564, 774
BseLI CCNNNNNNNGG 5 cut(s) 42, 55, 322, 650, 686
BseMII CTCAG 1 cut(s) 477
BseNI ACTGG 3 cut(s) 185, 227, 722
BseRI GAGGAG 2 cut(s) 59, 269
BseSI GKGCMC 1 cut(s) 338
BseXI GCAGC 4 cut(s) 76, 529, 532, 727
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 1 cut(s) 478
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 3 cut(s) 540, 645, 713
BstDEI CTNAG 1 cut(s) 486
BstENI CCTNNNNNAGG 1 cut(s) 648
BstF5I GGATG 3 cut(s) 281, 564, 774
BstFNI CGCG 1 cut(s) 159
BstHHI GCGC 3 cut(s) 159, 455, 790
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
BstSCI CCNGG 4 cut(s) 34, 102, 112, 338
BstSLI GKGCMC 1 cut(s) 338
BstUI CGCG 1 cut(s) 159
BstV1I GCAGC 4 cut(s) 76, 529, 532, 727
BsuRI GGCC 5 cut(s) 107, 538, 643, 661, 711
BtrI CACGTC 1 cut(s) 307
BtsCI GGATG 3 cut(s) 281, 564, 774
BtsIMutI CAGTG 2 cut(s) 220, 729
Cac8I GCNNGC 3 cut(s) 540, 645, 713
CaiI CAGNNNCTG 1 cut(s) 545
CfoI GCGC 3 cut(s) 159, 455, 790
Cfr13I GGNCC 4 cut(s) 617, 653, 660, 692
Csp6I GTAC 4 cut(s) 196, 226, 470, 760
CviAII CATG 2 cut(s) 475, 781
CviQI GTAC 4 cut(s) 196, 226, 470, 760
DdeI CTNAG 1 cut(s) 486
DpnI GATC 3 cut(s) 131, 430, 701
DpnII GATC 3 cut(s) 129, 428, 699
DraIII CACNNNGTG 1 cut(s) 737
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, 784
FaiI YATR 8 cut(s) 110, 234, 412, 476, 629, 682, 687, 782
FaqI GGGAC 2 cut(s) 317, 546
FatI CATG 2 cut(s) 474, 780
FbaI TGATCA 1 cut(s) 699
Fnu4HI GCNGC 8 cut(s) 65, 118, 316, 543, 546, 549, 716, 719
FokI GGATG 3 cut(s) 288, 551, 761
Fsp4HI GCNGC 8 cut(s) 65, 118, 316, 543, 546, 549, 716, 719
FspBI CTAG 2 cut(s) 345, 558
GlaI GCGC 3 cut(s) 158, 454, 789
GluI GCNGC 8 cut(s) 65, 118, 316, 543, 546, 549, 716, 719
GsaI CCCAGC 1 cut(s) 243
GsuI CTGGAG 1 cut(s) 202
HaeIII GGCC 5 cut(s) 107, 538, 643, 661, 711
HapII CCGG 4 cut(s) 36, 43, 104, 114
HhaI GCGC 3 cut(s) 159, 455, 790
Hin1II CATG 2 cut(s) 478, 784
Hin6I GCGC 3 cut(s) 157, 453, 788
HinP1I GCGC 3 cut(s) 157, 453, 788
HinfI GANTC 1 cut(s) 8
HpaII CCGG 4 cut(s) 36, 43, 104, 114
HphI GGTGA 1 cut(s) 375
Hpy166II GTNNAC 1 cut(s) 593
Hpy188I TCNGA 5 cut(s) 58, 134, 145, 169, 433
Hpy188III TCNNGA 1 cut(s) 426
Hpy8I GTNNAC 1 cut(s) 593
Hpy99I CGWCG 1 cut(s) 365
HpyAV CCTTC 3 cut(s) 41, 63, 594
HpyCH4III ACNGT 4 cut(s) 165, 200, 493, 600
HpyCH4IV ACGT 2 cut(s) 306, 758
HpyF10VI GCNNNNNNNGC 5 cut(s) 104, 548, 640, 712, 724
HpyF3I CTNAG 1 cut(s) 486
HpySE526I ACGT 2 cut(s) 306, 758
Hsp92II CATG 2 cut(s) 478, 784
HspAI GCGC 3 cut(s) 157, 453, 788
Ksp22I TGATCA 1 cut(s) 699
Kzo9I GATC 3 cut(s) 129, 428, 699
LmnI GCTCC 1 cut(s) 72
Lsp1109I GCAGC 4 cut(s) 76, 529, 532, 727
LweI GCATC 3 cut(s) 13, 581, 666
MaeI CTAG 2 cut(s) 345, 558
MaeII ACGT 2 cut(s) 306, 758
MaeIII GTNAC 2 cut(s) 171, 200
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 1 cut(s) 445
MmeI TCCRAC 1 cut(s) 260
MnlI CCTC 8 cut(s) 80, 204, 210, 247, 279, 391, 528, 659
MroXI GAANNNNTTC 1 cut(s) 421
MseI TTAA 1 cut(s) 611
MslI CAYNNNNRTG 1 cut(s) 779
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, 784
NlaIV GGNNCC 2 cut(s) 47, 337
PceI AGGCCT 1 cut(s) 643
PcsI WCGNNNNNNNCGW 1 cut(s) 369
PdmI GAANNNNTTC 1 cut(s) 421
PfeI GAWTC 1 cut(s) 8
Pfl23II CGTACG 1 cut(s) 195
PflMI CCANNNNNTGG 1 cut(s) 686
PkrI GCNGC 8 cut(s) 66, 119, 317, 544, 547, 550, 717, 720
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 4 cut(s) 197, 227, 471, 761
RsaNI GTAC 4 cut(s) 196, 226, 470, 760
RseI CAYNNNNRTG 1 cut(s) 779
SaqAI TTAA 1 cut(s) 611
SatI GCNGC 8 cut(s) 65, 118, 316, 543, 546, 549, 716, 719
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
SmiMI CAYNNNNRTG 1 cut(s) 779
SmlI CTYRAG 1 cut(s) 648
SmoI CTYRAG 1 cut(s) 648
Sse9I AATT 1 cut(s) 445
SseBI AGGCCT 1 cut(s) 643
SsiI CCGC 5 cut(s) 117, 251, 316, 549, 719
SspI AATATT 2 cut(s) 420, 795
SspMI CTAG 2 cut(s) 345, 558
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 2 cut(s) 309, 761
TaqI TCGA 3 cut(s) 533, 606, 674
TasI AATT 1 cut(s) 445
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
TseI GCWGC 4 cut(s) 64, 542, 545, 715
TspDTI ATGAA 3 cut(s) 480, 525, 763
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
XmnI GAANNNNTTC 1 cut(s) 421
XspI CTAG 2 cut(s) 345, 558
ZrmI AGTACT 1 cut(s) 471
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.