RchiOBHm_Chr7g0243921

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
7
OG0022387
Physical Location & Seq
Forward (+)
70228783 .. 70231600
2818 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ21861

Sequence Viewer

Length: 525 bp
ATGGCGTTGATGGAGGCGATGGAAGGGGACAGAGTCAACAAGGTGAGGAAGTTACTGATGATGTCAGCGAATAAGCGGATTCCGTTGAGCAAGATTTATCACTGCAGGTTGTTGTTTGGGATTCCTGAAGATTTTCGGGACAGGGTGGCGAAGTATCCTGATTATTTCAGGGTTGTGGTTGAGGGTGATGGGAAGAGAGTGCTGGAATTGGTGAAATGGGATCCTTTGTTAGCAGTTAGTAGTTTAGAGAGGGAGTTTGTGGTGAATGAGGATAAGGTTAAGAGGGCTTTTAGGTTTCCTGTGAAGCATGGGAAAGATTTAGATGGGTCGAGATTGGACCTGTGGACATTGGAAGCTGAGAAGTATAGGGTGGGAATTTTGCATGAGTTTTTGAGCTTGACATTGGAGAAGAGGGCTTCTATACACCACATTGTGGAGTTCAAGGAGGAGTTTAGTTTGACTAAGCACACTTACCAGATGCTGTTTAAGCAGCCCAGGACGTTTTATTTGCCGGGACTGAGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PORR

Protein Analysis

174

Amino Acids

20.61

Weight (kDa)

9.49

Isoelectric Point (pI)

34.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 3 - 108 2.3e-31 Plant organelle RNA recognition domain
PORR PF11955 108 - 170 2.4e-19 Plant organelle RNA recognition domain
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: OG0022387)

Species Orthologous Gene IDs
malus_domestica MD08G1184600.v1.1
rosa_chinensis RchiOBHm_Chr7g0243921
rosa_multiflora Rmu_co8462763.1_g000001
rosa_samantha Rh7AG476800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 96
AccB7I CCANNNNNTGG 1 cut(s) 433
AciI CCGC 1 cut(s) 76
AclWI GGATC 2 cut(s) 215, 228
AcsI RAATTY 1 cut(s) 375
AcuI CTGAAG 1 cut(s) 147
AdeI CACNNNGTG 1 cut(s) 433
AfiI CCNNNNNNNGG 1 cut(s) 433
AgsI TTSAA 1 cut(s) 442
AjnI CCWGG 1 cut(s) 494
AluBI AGCT 2 cut(s) 356, 396
AluI AGCT 2 cut(s) 356, 396
AlwI GGATC 2 cut(s) 215, 228
AlwNI CAGNNNCTG 1 cut(s) 481
ApeKI GCWGC 1 cut(s) 490
ApoI RAATTY 1 cut(s) 375
ArsI GACNNNNNNTTYG 2 cut(s) 490, 522
Asp700I GAANNNNTTC 1 cut(s) 132
AspS9I GGNCC 1 cut(s) 337
AsuC2I CCSGG 1 cut(s) 513
AsuHPI GGTGA 4 cut(s) 55, 197, 223, 274
AvaII GGWCC 1 cut(s) 337
BamHI GGATCC 1 cut(s) 220
BbvI GCAGC 1 cut(s) 502
BccI CCATC 4 cut(s) 4, 13, 182, 317
BciT130I CCWGG 1 cut(s) 496
BciVI GTATCC 1 cut(s) 165
BcnI CCSGG 1 cut(s) 513
BfmI CTRYAG 1 cut(s) 103
BfuAI ACCTGC 1 cut(s) 96
BfuI GTATCC 1 cut(s) 165
BisI GCNGC 1 cut(s) 491
BlsI GCNGC 1 cut(s) 492
Bme1390I CCNGG 2 cut(s) 496, 513
Bme18I GGWCC 1 cut(s) 337
BmgT120I GGNCC 1 cut(s) 337
BmiI GGNNCC 1 cut(s) 222
BmrFI CCNGG 2 cut(s) 496, 513
BmsI GCATC 1 cut(s) 468
BpuMI CCSGG 1 cut(s) 513
BsaJI CCNNGG 1 cut(s) 494
Bsc4I CCNNNNNNNGG 1 cut(s) 433
BseBI CCWGG 1 cut(s) 496
BseDI CCNNGG 1 cut(s) 494
BseLI CCNNNNNNNGG 1 cut(s) 433
BseMII CTCAG 2 cut(s) 348, 509
BseRI GAGGAG 1 cut(s) 461
BseXI GCAGC 1 cut(s) 502
BsiSI CCGG 1 cut(s) 512
BslFI GGGAC 2 cut(s) 41, 152
BslI CCNNNNNNNGG 1 cut(s) 433
BsmFI GGGAC 2 cut(s) 41, 152
Bsp143I GATC 1 cut(s) 220
BspACI CCGC 1 cut(s) 76
BspCNI CTCAG 2 cut(s) 349, 510
BspLI GGNNCC 1 cut(s) 222
BspMAI CTGCAG 1 cut(s) 107
BspMI ACCTGC 1 cut(s) 96
BspPI GGATC 2 cut(s) 215, 228
BssECI CCNNGG 1 cut(s) 494
BssMI GATC 1 cut(s) 220
Bst2UI CCWGG 1 cut(s) 496
Bst6I CTCTTC 2 cut(s) 188, 404
BstDEI CTNAG 3 cut(s) 357, 462, 518
BstKTI GATC 1 cut(s) 223
BstMBI GATC 1 cut(s) 220
BstMWI GCNNNNNNNGC 1 cut(s) 487
BstNI CCWGG 1 cut(s) 496
BstSCI CCNGG 2 cut(s) 494, 511
BstSFI CTRYAG 1 cut(s) 103
BstV1I GCAGC 1 cut(s) 502
BstX2I RGATCY 1 cut(s) 220
BstYI RGATCY 1 cut(s) 220
BsuI GTATCC 1 cut(s) 165
BtgZI GCGATG 1 cut(s) 32
BtsI GCAGTG 1 cut(s) 100
BtsIMutI CAGTG 1 cut(s) 100
BveI ACCTGC 1 cut(s) 96
CaiI CAGNNNCTG 1 cut(s) 481
Cfr13I GGNCC 1 cut(s) 337
CviAII CATG 2 cut(s) 308, 383
CviJI RGCY 5 cut(s) 287, 356, 396, 416, 493
CviKI_1 RGCY 5 cut(s) 287, 356, 396, 416, 493
DdeI CTNAG 3 cut(s) 357, 462, 518
DpnI GATC 1 cut(s) 222
DpnII GATC 1 cut(s) 220
DraIII CACNNNGTG 1 cut(s) 433
Eam1104I CTCTTC 2 cut(s) 188, 404
EarI CTCTTC 2 cut(s) 188, 404
Eco47I GGWCC 1 cut(s) 337
Eco57I CTGAAG 1 cut(s) 147
EcoRII CCWGG 1 cut(s) 494
FaeI CATG 2 cut(s) 311, 386
FaiI YATR 4 cut(s) 309, 366, 384, 422
FaqI GGGAC 2 cut(s) 41, 152
FatI CATG 2 cut(s) 307, 382
Fnu4HI GCNGC 1 cut(s) 491
Fsp4HI GCNGC 1 cut(s) 491
GluI GCNGC 1 cut(s) 491
HapII CCGG 1 cut(s) 512
Hin1II CATG 2 cut(s) 311, 386
HincII GTYRAC 1 cut(s) 37
HindII GTYRAC 1 cut(s) 37
HinfI GANTC 3 cut(s) 33, 79, 121
HpaII CCGG 1 cut(s) 512
HphI GGTGA 4 cut(s) 55, 197, 223, 274
Hpy166II GTNNAC 2 cut(s) 37, 345
Hpy188III TCNNGA 4 cut(s) 125, 137, 158, 330
Hpy8I GTNNAC 2 cut(s) 37, 345
HpyAV CCTTC 1 cut(s) 17
HpyCH4IV ACGT 1 cut(s) 500
HpyCH4V TGCA 2 cut(s) 105, 382
HpyF10VI GCNNNNNNNGC 1 cut(s) 487
HpyF3I CTNAG 3 cut(s) 357, 462, 518
HpySE526I ACGT 1 cut(s) 500
Hsp92II CATG 2 cut(s) 311, 386
Kzo9I GATC 1 cut(s) 220
Lsp1109I GCAGC 1 cut(s) 502
LweI GCATC 1 cut(s) 468
MaeII ACGT 1 cut(s) 500
MaeIII GTNAC 1 cut(s) 51
MalI GATC 1 cut(s) 222
MboI GATC 1 cut(s) 220
MboII GAAGA 3 cut(s) 140, 205, 421
MflI RGATCY 1 cut(s) 220
MluCI AATT 2 cut(s) 206, 375
MlyI GAGTC 1 cut(s) 42
MnlI CCTC 8 cut(s) 7, 39, 175, 243, 262, 276, 405, 439
MroXI GAANNNNTTC 1 cut(s) 132
MseI TTAA 2 cut(s) 279, 486
MspI CCGG 1 cut(s) 512
MspR9I CCNGG 2 cut(s) 496, 513
MvaI CCWGG 1 cut(s) 496
MwoI GCNNNNNNNGC 1 cut(s) 487
NciI CCSGG 1 cut(s) 513
NdeII GATC 1 cut(s) 220
NlaIII CATG 2 cut(s) 311, 386
NlaIV GGNNCC 1 cut(s) 222
PdmI GAANNNNTTC 1 cut(s) 132
PfeI GAWTC 2 cut(s) 79, 121
PflFI GACNNNGTC 1 cut(s) 32
PflMI CCANNNNNTGG 1 cut(s) 433
PkrI GCNGC 1 cut(s) 492
PleI GAGTC 1 cut(s) 41
PpsI GAGTC 1 cut(s) 41
Psp6I CCWGG 1 cut(s) 494
PspGI CCWGG 1 cut(s) 494
PspN4I GGNNCC 1 cut(s) 222
PspPI GGNCC 1 cut(s) 337
PstI CTGCAG 1 cut(s) 107
PstNI CAGNNNCTG 1 cut(s) 481
PsuI RGATCY 1 cut(s) 220
PsyI GACNNNGTC 1 cut(s) 32
SaqAI TTAA 2 cut(s) 279, 486
SatI GCNGC 1 cut(s) 491
Sau3AI GATC 1 cut(s) 220
Sau96I GGNCC 1 cut(s) 337
SchI GAGTC 1 cut(s) 42
ScrFI CCNGG 2 cut(s) 496, 513
SetI ASST 8 cut(s) 45, 110, 279, 296, 342, 358, 398, 503
SfaNI GCATC 1 cut(s) 468
SfcI CTRYAG 1 cut(s) 103
SinI GGWCC 1 cut(s) 337
Sse9I AATT 2 cut(s) 206, 375
SsiI CCGC 1 cut(s) 76
StyD4I CCNGG 2 cut(s) 494, 511
TaiI ACGT 1 cut(s) 503
TaqI TCGA 1 cut(s) 329
TasI AATT 2 cut(s) 206, 375
TfiI GAWTC 2 cut(s) 79, 121
Tru1I TTAA 2 cut(s) 279, 486
Tru9I TTAA 2 cut(s) 279, 486
TscAI CASTG 1 cut(s) 107
TseI GCWGC 1 cut(s) 490
TspGWI ACGGA 1 cut(s) 72
TspRI CASTG 1 cut(s) 107
Tth111I GACNNNGTC 1 cut(s) 32
Van91I CCANNNNNTGG 1 cut(s) 433
VpaK11BI GGWCC 1 cut(s) 337
XapI RAATTY 1 cut(s) 375
XmnI GAANNNNTTC 1 cut(s) 132
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.