Rh6DG477100

RNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0016143
Physical Location & Seq
Reverse (-)
64231950 .. 64232375
426 bp
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UTR
Exon/CDS
Intron
Rh6DG477100.1

Sequence Viewer

Length: 426 bp
ATGGCAGATTCGAAATCAACAGATGCGTTCCCTCCCGGTTTCCGGTTCCACCCTTCGGAACAGCAGCTCCTCTCCTACTATCTCTCAAACAAGAAAGCCAACCCGGCCATACCCGGCGGCTACAATACGATCAGAGAGCTGTCAGACTTACGAGGGCGCGAACCGTCCGAGTTACAGAACTGGAGTTGCTATTCGTACGGTTACAAAAGGAGGAAGAGGCACTGGTACTTTTATACAGCTGGGGTTTCGGCGGAGGAGAAAAATACCAAGCAGGGATGTTGGAAGAGGAAAGGTAAGGTTAGGGACGTGTTCAGCCGCCAAGGGGTTGTTTTGGGCACTAGGACTAGCTTTGTCTATTACGACGGGTCGCCCGACACAGCCTCACCTAATGCTTGGGTACTCTATCAGTATGCTCGATCTGGCTAA
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

141

Amino Acids

16.23

Weight (kDa)

9.69

Isoelectric Point (pI)

59.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAM PF02365 11 - 138 5.8e-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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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)
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 1 cut(s) 306
AjiI CACGTC 1 cut(s) 307
AloI GAACNNNNNNTCC 2 cut(s) 51, 83
AluBI AGCT 4 cut(s) 67, 139, 239, 348
AluI AGCT 4 cut(s) 67, 139, 239, 348
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
AsuII TTCGAA 1 cut(s) 11
BaeGI GKGCMC 1 cut(s) 338
BbvI GCAGC 1 cut(s) 76
BcnI CCSGG 3 cut(s) 36, 104, 114
BfaI CTAG 2 cut(s) 339, 345
BglI GCCNNNNNGGC 1 cut(s) 104
BisI GCNGC 3 cut(s) 65, 118, 316
BlsI GCNGC 3 cut(s) 66, 119, 317
Bme1390I CCNGG 3 cut(s) 36, 104, 114
BmgBI CACGTC 1 cut(s) 307
BmiI GGNNCC 1 cut(s) 47
BmrFI CCNGG 3 cut(s) 36, 104, 114
BmsI GCATC 1 cut(s) 13
BpmI CTGGAG 1 cut(s) 202
Bpu14I TTCGAA 1 cut(s) 11
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 2 cut(s) 185, 227
BseDI CCNNGG 1 cut(s) 319
BseGI GGATG 1 cut(s) 281
BseLI CCNNNNNNNGG 3 cut(s) 42, 55, 322
BseNI ACTGG 2 cut(s) 185, 227
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
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
BsmFI GGGAC 1 cut(s) 317
BsnI GGCC 1 cut(s) 107
Bsp119I TTCGAA 1 cut(s) 11
Bsp1286I GDGCHC 1 cut(s) 338
Bsp143I GATC 2 cut(s) 129, 416
BspACI CCGC 3 cut(s) 117, 251, 316
BspANI GGCC 1 cut(s) 107
BspFNI CGCG 1 cut(s) 159
BspLI GGNNCC 1 cut(s) 47
BspT104I TTCGAA 1 cut(s) 11
BsrI ACTGG 2 cut(s) 185, 227
BssECI CCNNGG 1 cut(s) 319
BssMI GATC 2 cut(s) 129, 416
BssT1I CCWWGG 1 cut(s) 319
Bst4CI ACNGT 2 cut(s) 165, 200
Bst6I CTCTTC 2 cut(s) 209, 278
BstBI TTCGAA 1 cut(s) 11
BstF5I GGATG 1 cut(s) 281
BstFNI CGCG 1 cut(s) 159
BstHHI GCGC 1 cut(s) 159
BstKTI GATC 2 cut(s) 132, 419
BstMBI GATC 2 cut(s) 129, 416
BstMWI GCNNNNNNNGC 1 cut(s) 104
BstSCI CCNGG 3 cut(s) 34, 102, 112
BstSLI GKGCMC 1 cut(s) 338
BstUI CGCG 1 cut(s) 159
BstV1I GCAGC 1 cut(s) 76
BsuRI GGCC 1 cut(s) 107
BtrI CACGTC 1 cut(s) 307
BtsCI GGATG 1 cut(s) 281
BtsIMutI CAGTG 1 cut(s) 220
CfoI GCGC 1 cut(s) 159
Csp6I GTAC 3 cut(s) 196, 226, 398
CviQI GTAC 3 cut(s) 196, 226, 398
DpnI GATC 2 cut(s) 131, 418
DpnII GATC 2 cut(s) 129, 416
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
EcoT14I CCWWGG 1 cut(s) 319
ErhI CCWWGG 1 cut(s) 319
FaiI YATR 3 cut(s) 110, 234, 411
FaqI GGGAC 1 cut(s) 317
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) 339, 345
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
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 2 cut(s) 165, 200
HpyCH4IV ACGT 1 cut(s) 306
HpyF10VI GCNNNNNNNGC 1 cut(s) 104
HpySE526I ACGT 1 cut(s) 306
HspAI GCGC 1 cut(s) 157
Kzo9I GATC 2 cut(s) 129, 416
LmnI GCTCC 1 cut(s) 72
LpnPI CCDG 9 cut(s) 49, 56, 117, 127, 166, 208, 225, 257, 405
Lsp1109I GCAGC 1 cut(s) 76
LweI GCATC 1 cut(s) 13
MaeI CTAG 2 cut(s) 339, 345
MaeII ACGT 1 cut(s) 306
MaeIII GTNAC 2 cut(s) 171, 200
MalI GATC 2 cut(s) 131, 418
MboI GATC 2 cut(s) 129, 416
MboII GAAGA 2 cut(s) 226, 295
MhlI GDGCHC 1 cut(s) 338
MmeI TCCRAC 1 cut(s) 260
MnlI CCTC 8 cut(s) 42, 80, 146, 204, 210, 247, 279, 391
MspA1I CMGCKG 1 cut(s) 239
MspI CCGG 4 cut(s) 36, 43, 104, 114
MspR9I CCNGG 3 cut(s) 36, 104, 114
MvnI CGCG 1 cut(s) 159
MwoI GCNNNNNNNGC 1 cut(s) 104
NciI CCSGG 3 cut(s) 36, 104, 114
NdeII GATC 2 cut(s) 129, 416
NlaIV GGNNCC 1 cut(s) 47
NspV TTCGAA 1 cut(s) 11
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
PspFI CCCAGC 1 cut(s) 239
PspLI CGTACG 1 cut(s) 195
PspN4I GGNNCC 1 cut(s) 47
PvuII CAGCTG 1 cut(s) 239
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 2 cut(s) 129, 416
ScrFI CCNGG 3 cut(s) 36, 104, 114
SduI GDGCHC 1 cut(s) 338
SetI ASST 8 cut(s) 69, 141, 241, 295, 300, 309, 350, 388
SfaNI GCATC 1 cut(s) 13
SfuI TTCGAA 1 cut(s) 11
SsiI CCGC 3 cut(s) 117, 251, 316
SspMI CTAG 2 cut(s) 339, 345
StyD4I CCNGG 3 cut(s) 34, 102, 112
StyI CCWWGG 1 cut(s) 319
TaaI ACNGT 2 cut(s) 165, 200
TaiI ACGT 1 cut(s) 309
TaqI TCGA 2 cut(s) 11, 415
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
XspI CTAG 2 cut(s) 339, 345
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.