RchiOBHm_Chr6g0308281

RNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0016143
Physical Location & Seq
Reverse (-)
66343020 .. 66343547
528 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 528 bp
ATGGCAGATTCCAAATCAACAGATGCGTTCCCTCCCGGTTTCCGGTTCCACCCTTCGGAACAGCAGCTCCTCTCCTACTATCTCTCAAACAAGAAAGCCAACCCGGCCATACCCGGCGGCTACAATACGATCAGAGAGCTGTCAGACTTACGAGGGCGCGACCCGTCCGAGTTACAGAACTGGAGTTGCTATTCGTACGGTTACAAAGGGAGGAAGAGGCACTGGTACTTTTATACGGCTGGGGTTTCGGCGGAGGAGAAGAATACCAAGCAGGGATGTTGGAAGAGGAAAGGTAAGGTTAGGGACGTGTTCAGCCGCCAAGGGGTTGTTTTGGGCACCAGGACTAGCTTTGTCTATTACGACGGGTCGCCCGACACAGCCTCACCGACTGCTTGGGTACTCTATCAGTATGCTCTGGCTAATCATGTCGAGGTAATCATATTTACATGTGCCTGCAGTTTCGCTCTGGTATCTATGTATATTTGTTGTCCATTTAGTTACTGGATACTAGGGAGACTTCTTGCTTAG
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

175

Amino Acids

19.96

Weight (kDa)

9.2

Isoelectric Point (pI)

47.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAM PF02365 11 - 139 1.5e-21 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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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
AccII CGCG 1 cut(s) 159
AciI CCGC 3 cut(s) 117, 251, 316
AcoI YGGCCR 1 cut(s) 105
AfaI GTAC 3 cut(s) 197, 227, 399
AfiI CCNNNNNNNGG 3 cut(s) 42, 55, 322
AflIII ACRYGT 2 cut(s) 306, 446
AjiI CACGTC 1 cut(s) 307
AjnI CCWGG 1 cut(s) 338
AloI GAACNNNNNNTCC 2 cut(s) 51, 83
AluBI AGCT 3 cut(s) 67, 139, 348
AluI AGCT 3 cut(s) 67, 139, 348
Alw26I GTCTC 1 cut(s) 508
AoxI GGCC 1 cut(s) 105
ApeKI GCWGC 1 cut(s) 64
AspLEI GCGC 1 cut(s) 159
AsuC2I CCSGG 3 cut(s) 36, 104, 114
AsuHPI GGTGA 1 cut(s) 375
BaeGI GKGCMC 1 cut(s) 338
BanI GGYRCC 1 cut(s) 335
BbvI GCAGC 1 cut(s) 76
BceAI ACGGC 1 cut(s) 252
BciT130I CCWGG 1 cut(s) 340
BciVI GTATCC 1 cut(s) 498
BcnI CCSGG 3 cut(s) 36, 104, 114
BcoDI GTCTC 1 cut(s) 508
BfaI CTAG 2 cut(s) 345, 509
BfmI CTRYAG 1 cut(s) 454
BfuI GTATCC 1 cut(s) 498
BglI GCCNNNNNGGC 1 cut(s) 104
BisI GCNGC 3 cut(s) 65, 118, 316
BlsI GCNGC 3 cut(s) 66, 119, 317
Bme1390I CCNGG 4 cut(s) 36, 104, 114, 340
BmgBI CACGTC 1 cut(s) 307
BmiI GGNNCC 2 cut(s) 47, 337
BmrFI CCNGG 4 cut(s) 36, 104, 114, 340
BmsI GCATC 1 cut(s) 13
BpmI CTGGAG 1 cut(s) 202
BpuMI CCSGG 3 cut(s) 36, 104, 114
BsaJI CCNNGG 1 cut(s) 319
BsaWI WCCGGW 1 cut(s) 42
BsaXI ACNNNNNCTCC 2 cut(s) 51, 81
Bsc4I CCNNNNNNNGG 3 cut(s) 42, 55, 322
Bse1I ACTGG 3 cut(s) 185, 227, 506
BseBI CCWGG 1 cut(s) 340
BseDI CCNNGG 1 cut(s) 319
BseGI GGATG 1 cut(s) 281
BseLI CCNNNNNNNGG 3 cut(s) 42, 55, 322
BseNI ACTGG 3 cut(s) 185, 227, 506
BseRI GAGGAG 2 cut(s) 59, 269
BseSI GKGCMC 1 cut(s) 338
BseXI GCAGC 1 cut(s) 76
BseYI CCCAGC 1 cut(s) 239
Bsh1236I CGCG 1 cut(s) 159
BshFI GGCC 1 cut(s) 107
BshNI GGYRCC 1 cut(s) 335
BsiSI CCGG 4 cut(s) 36, 43, 104, 114
BsiWI CGTACG 1 cut(s) 195
BslFI GGGAC 1 cut(s) 317
BslI CCNNNNNNNGG 3 cut(s) 42, 55, 322
BsmAI GTCTC 1 cut(s) 508
BsmFI GGGAC 1 cut(s) 317
BsnI GGCC 1 cut(s) 107
Bsp1286I GDGCHC 1 cut(s) 338
Bsp143I GATC 1 cut(s) 129
BspACI CCGC 3 cut(s) 117, 251, 316
BspANI GGCC 1 cut(s) 107
BspFNI CGCG 1 cut(s) 159
BspLI GGNNCC 2 cut(s) 47, 337
BspMAI CTGCAG 1 cut(s) 458
BspT107I GGYRCC 1 cut(s) 335
BsrI ACTGG 3 cut(s) 185, 227, 506
BssECI CCNNGG 1 cut(s) 319
BssMI GATC 1 cut(s) 129
BssT1I CCWWGG 1 cut(s) 319
Bst2UI CCWGG 1 cut(s) 340
Bst4CI ACNGT 1 cut(s) 200
Bst6I CTCTTC 2 cut(s) 209, 278
BstC8I GCNNGC 1 cut(s) 454
BstDEI CTNAG 1 cut(s) 525
BstF5I GGATG 1 cut(s) 281
BstFNI CGCG 1 cut(s) 159
BstHHI GCGC 1 cut(s) 159
BstKTI GATC 1 cut(s) 132
BstMAI GTCTC 1 cut(s) 508
BstMBI GATC 1 cut(s) 129
BstMWI GCNNNNNNNGC 1 cut(s) 104
BstNI CCWGG 1 cut(s) 340
BstNSI RCATGY 1 cut(s) 450
BstSCI CCNGG 4 cut(s) 34, 102, 112, 338
BstSFI CTRYAG 1 cut(s) 454
BstSLI GKGCMC 1 cut(s) 338
BstUI CGCG 1 cut(s) 159
BstV1I GCAGC 1 cut(s) 76
BsuI GTATCC 1 cut(s) 498
BsuRI GGCC 1 cut(s) 107
BtrI CACGTC 1 cut(s) 307
BtsCI GGATG 1 cut(s) 281
BtsIMutI CAGTG 1 cut(s) 220
Cac8I GCNNGC 1 cut(s) 454
CfoI GCGC 1 cut(s) 159
Csp6I GTAC 3 cut(s) 196, 226, 398
CviAII CATG 2 cut(s) 425, 447
CviQI GTAC 3 cut(s) 196, 226, 398
DdeI CTNAG 1 cut(s) 525
DpnI GATC 1 cut(s) 131
DpnII GATC 1 cut(s) 129
EaeI YGGCCR 1 cut(s) 105
Eam1104I CTCTTC 2 cut(s) 209, 278
EarI CTCTTC 2 cut(s) 209, 278
EciI GGCGGA 1 cut(s) 266
Eco130I CCWWGG 1 cut(s) 319
EcoRII CCWGG 1 cut(s) 338
EcoT14I CCWWGG 1 cut(s) 319
ErhI CCWWGG 1 cut(s) 319
FaeI CATG 2 cut(s) 428, 450
FaiI YATR 8 cut(s) 110, 234, 411, 426, 440, 448, 476, 480
FaqI GGGAC 1 cut(s) 317
FatI CATG 2 cut(s) 424, 446
Fnu4HI GCNGC 3 cut(s) 65, 118, 316
FokI GGATG 1 cut(s) 288
Fsp4HI GCNGC 3 cut(s) 65, 118, 316
FspBI CTAG 2 cut(s) 345, 509
GlaI GCGC 1 cut(s) 158
GluI GCNGC 3 cut(s) 65, 118, 316
GsaI CCCAGC 1 cut(s) 243
GsuI CTGGAG 1 cut(s) 202
HaeIII GGCC 1 cut(s) 107
HapII CCGG 4 cut(s) 36, 43, 104, 114
HhaI GCGC 1 cut(s) 159
Hin1II CATG 2 cut(s) 428, 450
Hin6I GCGC 1 cut(s) 157
HinP1I GCGC 1 cut(s) 157
HinfI GANTC 1 cut(s) 8
HpaII CCGG 4 cut(s) 36, 43, 104, 114
HphI GGTGA 1 cut(s) 375
Hpy188I TCNGA 4 cut(s) 58, 134, 145, 169
Hpy99I CGWCG 1 cut(s) 365
HpyAV CCTTC 1 cut(s) 63
HpyCH4III ACNGT 1 cut(s) 200
HpyCH4IV ACGT 1 cut(s) 306
HpyCH4V TGCA 1 cut(s) 456
HpyF10VI GCNNNNNNNGC 1 cut(s) 104
HpyF3I CTNAG 1 cut(s) 525
HpySE526I ACGT 1 cut(s) 306
Hsp92II CATG 2 cut(s) 428, 450
HspAI GCGC 1 cut(s) 157
Kzo9I GATC 1 cut(s) 129
LmnI GCTCC 1 cut(s) 72
Lsp1109I GCAGC 1 cut(s) 76
LweI GCATC 1 cut(s) 13
MaeI CTAG 2 cut(s) 345, 509
MaeII ACGT 1 cut(s) 306
MaeIII GTNAC 3 cut(s) 171, 200, 497
MalI GATC 1 cut(s) 131
MboI GATC 1 cut(s) 129
MboII GAAGA 3 cut(s) 226, 271, 295
MhlI GDGCHC 1 cut(s) 338
MmeI TCCRAC 1 cut(s) 260
MnlI CCTC 9 cut(s) 42, 80, 146, 204, 210, 247, 279, 391, 424
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 1 cut(s) 104
NciI CCSGG 3 cut(s) 36, 104, 114
NdeII GATC 1 cut(s) 129
NlaIII CATG 2 cut(s) 428, 450
NlaIV GGNNCC 2 cut(s) 47, 337
NspI RCATGY 1 cut(s) 450
PciI ACATGT 1 cut(s) 446
PcsI WCGNNNNNNNCGW 1 cut(s) 369
PfeI GAWTC 1 cut(s) 8
Pfl23II CGTACG 1 cut(s) 195
PkrI GCNGC 3 cut(s) 66, 119, 317
PscI ACATGT 1 cut(s) 446
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
PstI CTGCAG 1 cut(s) 458
RsaI GTAC 3 cut(s) 197, 227, 399
RsaNI GTAC 3 cut(s) 196, 226, 398
SatI GCNGC 3 cut(s) 65, 118, 316
Sau3AI GATC 1 cut(s) 129
ScrFI CCNGG 4 cut(s) 36, 104, 114, 340
SduI GDGCHC 1 cut(s) 338
SetI ASST 7 cut(s) 69, 141, 295, 300, 309, 350, 435
SfaNI GCATC 1 cut(s) 13
SfcI CTRYAG 1 cut(s) 454
SsiI CCGC 3 cut(s) 117, 251, 316
SspMI CTAG 2 cut(s) 345, 509
StyD4I CCNGG 4 cut(s) 34, 102, 112, 338
StyI CCWWGG 1 cut(s) 319
TaaI ACNGT 1 cut(s) 200
TaiI ACGT 1 cut(s) 309
TaqI TCGA 1 cut(s) 429
TauI GCSGC 2 cut(s) 120, 318
TfiI GAWTC 1 cut(s) 8
TscAI CASTG 1 cut(s) 227
TseI GCWGC 1 cut(s) 64
TspRI CASTG 1 cut(s) 227
XceI RCATGY 1 cut(s) 450
XcmI CCANNNNNNNNNTGG 1 cut(s) 498
XspI CTAG 2 cut(s) 345, 509
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.