RchiOBHm_Chr5g0046621

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0021443
Physical Location & Seq
Reverse (-)
42777882 .. 42778370
489 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32461

Sequence Viewer

Length: 417 bp
ATGCTGATAAGGCACCCTGATATGTTTTATATCTCGTTGAAAGGAGATATGGATTCAGTTTTTCTTAGGGAAGCATTCCGTGATTCTCAATTGATAGACGAGGATCGTCTGCTGATTATAAAAGAGAAGCTTCGAACTATTATTGCGGTTCCACGGTATCCTAGAAGGGGTGCTCGGATCCCAATAGAGAGGCAGACGGTGCTGAAGGAACCAATGAGGCACAAGATGGAACTGTTGATGAGGATGATTGGAGTACGTGATGAAGATGAAGATACACCCCCAGATTTCAACGAAGATGGGAAAACATTAAACAATCAACCGAGCAAACCAATTAATCAAGAAGGCTATTCGACAGAGAATGAAGAGAGGATGCTTGTTCCAGTGTTGCCAGATGGTCGGCCAAGAGGACGCTGGTAA

Protein Analysis

138

Amino Acids

16.33

Weight (kDa)

6.17

Isoelectric Point (pI)

47.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 1 - 48 1.6e-13 Plant organelle RNA recognition domain
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: OG0021443)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0046621
rosa_laevigata RLG00000034424
rosa_multiflora Rmu_sc0003878.1_g000001
rosa_samantha Rh5BG318900 Rh5DG329500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 119
AccB1I GGYRCC 1 cut(s) 12
AciI CCGC 1 cut(s) 146
AclWI GGATC 3 cut(s) 111, 172, 185
AcoI YGGCCR 1 cut(s) 398
AcuI CTGAAG 1 cut(s) 224
AfaI GTAC 1 cut(s) 255
AfiI CCNNNNNNNGG 1 cut(s) 167
AgsI TTSAA 2 cut(s) 40, 289
AluBI AGCT 1 cut(s) 130
AluI AGCT 1 cut(s) 130
Alw21I GWGCWC 1 cut(s) 175
AlwI GGATC 3 cut(s) 111, 172, 185
AoxI GGCC 1 cut(s) 398
AseI ATTAAT 1 cut(s) 333
AsuII TTCGAA 1 cut(s) 133
BamHI GGATCC 1 cut(s) 177
BanI GGYRCC 1 cut(s) 12
Bbv12I GWGCWC 1 cut(s) 175
BccI CCATC 3 cut(s) 220, 290, 386
BciVI GTATCC 1 cut(s) 168
BfaI CTAG 1 cut(s) 162
BfuI GTATCC 1 cut(s) 168
BmiI GGNNCC 4 cut(s) 14, 150, 179, 210
BmsI GCATC 1 cut(s) 360
Bpu14I TTCGAA 1 cut(s) 133
BsaAI YACGTR 1 cut(s) 257
BsaJI CCNNGG 1 cut(s) 152
Bsc4I CCNNNNNNNGG 1 cut(s) 167
Bse1I ACTGG 1 cut(s) 380
BseDI CCNNGG 1 cut(s) 152
BseGI GGATG 2 cut(s) 249, 375
BseLI CCNNNNNNNGG 1 cut(s) 167
BseNI ACTGG 1 cut(s) 380
BshFI GGCC 1 cut(s) 400
BshNI GGYRCC 1 cut(s) 12
BsiHKAI GWGCWC 1 cut(s) 175
BslI CCNNNNNNNGG 1 cut(s) 167
BsmI GAATGC 1 cut(s) 74
BsnI GGCC 1 cut(s) 400
Bsp119I TTCGAA 1 cut(s) 133
Bsp1286I GDGCHC 1 cut(s) 175
Bsp143I GATC 2 cut(s) 103, 177
BspACI CCGC 1 cut(s) 146
BspANI GGCC 1 cut(s) 400
BspLI GGNNCC 4 cut(s) 14, 150, 179, 210
BspPI GGATC 3 cut(s) 111, 172, 185
BspT104I TTCGAA 1 cut(s) 133
BspT107I GGYRCC 1 cut(s) 12
BsrI ACTGG 1 cut(s) 380
BssECI CCNNGG 1 cut(s) 152
BssMI GATC 2 cut(s) 103, 177
Bst4CI ACNGT 3 cut(s) 156, 199, 234
Bst6I CTCTTC 1 cut(s) 357
BstAPI GCANNNNNTGC 1 cut(s) 199
BstBAI YACGTR 1 cut(s) 257
BstBI TTCGAA 1 cut(s) 133
BstDEI CTNAG 1 cut(s) 65
BstDSI CCRYGG 1 cut(s) 152
BstF5I GGATG 2 cut(s) 249, 375
BstKTI GATC 2 cut(s) 106, 180
BstMBI GATC 2 cut(s) 103, 177
BstMWI GCNNNNNNNGC 2 cut(s) 10, 199
BstX2I RGATCY 1 cut(s) 177
BstYI RGATCY 1 cut(s) 177
BsuI GTATCC 1 cut(s) 168
BsuRI GGCC 1 cut(s) 400
BtgI CCRYGG 1 cut(s) 152
BtsCI GGATG 2 cut(s) 249, 375
BtsIMutI CAGTG 1 cut(s) 387
Csp6I GTAC 1 cut(s) 254
CviJI RGCY 3 cut(s) 130, 345, 400
CviKI_1 RGCY 3 cut(s) 130, 345, 400
CviQI GTAC 1 cut(s) 254
DdeI CTNAG 1 cut(s) 65
DpnI GATC 2 cut(s) 105, 179
DpnII GATC 2 cut(s) 103, 177
EaeI YGGCCR 1 cut(s) 398
Eam1104I CTCTTC 1 cut(s) 357
EarI CTCTTC 1 cut(s) 357
Eco57I CTGAAG 1 cut(s) 224
FaiI YATR 4 cut(s) 23, 30, 50, 119
FalI AAGNNNNNCTT 2 cut(s) 114, 146
FokI GGATG 2 cut(s) 256, 382
FspBI CTAG 1 cut(s) 162
HaeIII GGCC 1 cut(s) 400
HindIII AAGCTT 1 cut(s) 128
HinfI GANTC 2 cut(s) 53, 83
Hpy188I TCNGA 1 cut(s) 177
Hpy188III TCNNGA 1 cut(s) 338
HpyAV CCTTC 3 cut(s) 159, 199, 335
HpyCH4III ACNGT 3 cut(s) 156, 199, 234
HpyCH4IV ACGT 1 cut(s) 256
HpyF10VI GCNNNNNNNGC 2 cut(s) 10, 199
HpyF3I CTNAG 1 cut(s) 65
HpySE526I ACGT 1 cut(s) 256
Kzo9I GATC 2 cut(s) 103, 177
LpnPI CCDG 5 cut(s) 30, 294, 393, 397, 402
LweI GCATC 1 cut(s) 360
MaeI CTAG 1 cut(s) 162
MaeII ACGT 1 cut(s) 256
MalI GATC 2 cut(s) 105, 179
MboI GATC 2 cut(s) 103, 177
MboII GAAGA 4 cut(s) 275, 281, 305, 374
MfeI CAATTG 1 cut(s) 89
MflI RGATCY 1 cut(s) 177
MhlI GDGCHC 1 cut(s) 175
MluCI AATT 2 cut(s) 89, 330
MnlI CCTC 6 cut(s) 94, 183, 210, 234, 360, 398
MseI TTAA 2 cut(s) 308, 333
MunI CAATTG 1 cut(s) 89
Mva1269I GAATGC 1 cut(s) 74
MwoI GCNNNNNNNGC 2 cut(s) 10, 199
NdeII GATC 2 cut(s) 103, 177
NlaIV GGNNCC 4 cut(s) 14, 150, 179, 210
NspV TTCGAA 1 cut(s) 133
PctI GAATGC 1 cut(s) 74
PfeI GAWTC 2 cut(s) 53, 83
Ppu21I YACGTR 1 cut(s) 257
PshBI ATTAAT 1 cut(s) 333
PsiI TTATAA 1 cut(s) 119
PspN4I GGNNCC 4 cut(s) 14, 150, 179, 210
PsuI RGATCY 1 cut(s) 177
RsaI GTAC 1 cut(s) 255
RsaNI GTAC 1 cut(s) 254
SaqAI TTAA 2 cut(s) 308, 333
Sau3AI GATC 2 cut(s) 103, 177
SduI GDGCHC 1 cut(s) 175
SetI ASST 2 cut(s) 132, 259
SfaNI GCATC 1 cut(s) 360
SfuI TTCGAA 1 cut(s) 133
Sse9I AATT 2 cut(s) 89, 330
SsiI CCGC 1 cut(s) 146
SspMI CTAG 1 cut(s) 162
TaaI ACNGT 3 cut(s) 156, 199, 234
TaiI ACGT 1 cut(s) 259
TaqI TCGA 2 cut(s) 133, 350
TasI AATT 2 cut(s) 89, 330
TfiI GAWTC 2 cut(s) 53, 83
Tru1I TTAA 2 cut(s) 308, 333
Tru9I TTAA 2 cut(s) 308, 333
TscAI CASTG 1 cut(s) 387
TspDTI ATGAA 3 cut(s) 276, 282, 375
TspGWI ACGGA 1 cut(s) 68
TspRI CASTG 1 cut(s) 387
VspI ATTAAT 1 cut(s) 333
XcmI CCANNNNNNNNNTGG 1 cut(s) 408
XspI CTAG 1 cut(s) 162
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.