Rorug03G0168500

protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0014471
Physical Location & Seq
Forward (+)
14179508 .. 14182539
3032 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0168500.1

Sequence Viewer

Length: 702 bp
ATGGCGGAAGCTTCCGCTGCTCTCTTCTTCTCCCCCTTCTCTTCTTCTTTCTCTCCCGCCAAGCATCCCTCTCTCTCTTCTTTCTCCCGCGCTTTTTCTCCCAATTTCCCAATTTCCCATCCTTGCCCCTCCCGCCTCCTCCGCTTTCCCGCCAAATCCTCCTCCGATTCCCTCCCCGACGACCTCTTCAGCTTCTTTCCCTGGTCCAATGACTCCGAAATCCAATGGGTTCCTGAGGACAGAGTCACATTGTTCACTTCTGAGGGGCTTGTTCAGATTGGAGGCTCCATAGTCCCTCGCCGTGTCGCTTCTTCGGATAAGAAGAGGTCAAAGACTAGTCAAAGATATCAGCGATTTCAAGAGAGTGATTACATGGATACAGAGCAGGGTCTGTGTCTGGGTGCTCTCTTTGATATTGCAGCAACAAATGGACTTGATATGGGCAGGAGGCTTTGTATACTTGGGTTTTGCCGTTCCATTGAGATGCTAAGCGATGTTGTGGAAGACACTGTGTTGGAACATGGCGGGGAGGTTGTTGAGGCAGAGAAGGCGACAAAAGGTGGTTTGCATGAAAAGCTAAGAATGACGGTTGCGGTACCATTACTTTGGGGGGTTCCTCCTGCTTCTGAAACCCTTCACCTCGCTGTTAAGAGTGGCGGAGGAATTGTAGATAAGGTTTATTGGCAGTGGGATTTTCTGTAA
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

233

Amino Acids

25.73

Weight (kDa)

5.56

Isoelectric Point (pI)

56.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7811 PF25103 111 - 233 7.3e-67 Domain of unknown function (DUF7811)
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: OG0014471)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G58520 AT3G58520
fragaria_vesca FvH4_6g21580
malus_domestica MD14G1051500.v1.1
prunus_persica Prupe.7G084500_v2.0.a1
pyrus_communis pycom14g04280
rosa_chinensis RchiOBHm_Chr3g0478831
rosa_laevigata RLG00000023622
rosa_multiflora Rmu_sc0004831.1_g000011 Rmu_sc0005751.1_g000005 Rmu_sc0037242.1_g000002
rosa_roxburghii Rroxscaffold_6G00403040
rosa_rugosa Rorug03G0168500
rosa_samantha Rh3BG252100 Rh3CG249000 Rh3DG245200
rosa_wichuraiana Rw3G019800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 595
AccB1I GGYRCC 1 cut(s) 595
AccI GTMKAC 1 cut(s) 457
AccII CGCG 1 cut(s) 90
AcuI CTGAAG 1 cut(s) 172
AfaI GTAC 1 cut(s) 597
AgsI TTSAA 1 cut(s) 359
AhlI ACTAGT 1 cut(s) 335
AjnI CCWGG 1 cut(s) 200
AluBI AGCT 3 cut(s) 11, 192, 577
AluI AGCT 3 cut(s) 11, 192, 577
Alw21I GWGCWC 1 cut(s) 406
AlwNI CAGNNNCTG 1 cut(s) 391
ApeKI GCWGC 2 cut(s) 17, 419
Asp700I GAANNNNTTC 1 cut(s) 633
Asp718I GGTACC 1 cut(s) 595
AspLEI GCGC 1 cut(s) 92
AspS9I GGNCC 1 cut(s) 204
AsuHPI GGTGA 1 cut(s) 629
AvaII GGWCC 1 cut(s) 204
AxyI CCTNAGG 1 cut(s) 234
BanI GGYRCC 1 cut(s) 595
BbsI GAAGAC 1 cut(s) 510
Bbv12I GWGCWC 1 cut(s) 406
BbvI GCAGC 2 cut(s) 4, 431
BccI CCATC 1 cut(s) 126
BceAI ACGGC 2 cut(s) 285, 456
BciT130I CCWGG 1 cut(s) 202
BciVI GTATCC 1 cut(s) 370
BcuI ACTAGT 1 cut(s) 335
BfaI CTAG 1 cut(s) 336
BfuI GTATCC 1 cut(s) 370
BisI GCNGC 2 cut(s) 18, 420
BlpI GCTNAGC 1 cut(s) 488
BlsI GCNGC 2 cut(s) 19, 421
Bme1390I CCNGG 1 cut(s) 202
Bme18I GGWCC 1 cut(s) 204
BmgT120I GGNCC 1 cut(s) 204
BmiI GGNNCC 4 cut(s) 231, 286, 597, 615
BmrFI CCNGG 1 cut(s) 202
BmsI GCATC 2 cut(s) 73, 474
BpiI GAAGAC 1 cut(s) 510
Bpu1102I GCTNAGC 1 cut(s) 488
BsaJI CCNNGG 1 cut(s) 200
BsaXI ACNNNNNCTCC 4 cut(s) 439, 469, 651, 681
Bse21I CCTNAGG 1 cut(s) 234
BseBI CCWGG 1 cut(s) 202
BseDI CCNNGG 1 cut(s) 200
BseGI GGATG 2 cut(s) 64, 118
BseMII CTCAG 2 cut(s) 225, 252
BseRI GAGGAG 2 cut(s) 128, 151
BseXI GCAGC 2 cut(s) 4, 431
Bsh1236I CGCG 1 cut(s) 90
BshNI GGYRCC 1 cut(s) 595
BsiHKAI GWGCWC 1 cut(s) 406
BslFI GGGAC 1 cut(s) 278
BsmFI GGGAC 1 cut(s) 278
Bsp1286I GDGCHC 1 cut(s) 406
Bsp1720I GCTNAGC 1 cut(s) 488
BspCNI CTCAG 2 cut(s) 226, 253
BspFNI CGCG 1 cut(s) 90
BspLI GGNNCC 4 cut(s) 231, 286, 597, 615
BspT107I GGYRCC 1 cut(s) 595
BssECI CCNNGG 1 cut(s) 200
BssNAI GTATAC 1 cut(s) 458
Bst1107I GTATAC 1 cut(s) 458
Bst2UI CCWGG 1 cut(s) 202
Bst4CI ACNGT 2 cut(s) 511, 589
Bst6I CTCTTC 5 cut(s) 29, 46, 82, 191, 317
BstDEI CTNAG 4 cut(s) 234, 261, 488, 578
BstF5I GGATG 2 cut(s) 64, 118
BstFNI CGCG 1 cut(s) 90
BstHHI GCGC 1 cut(s) 92
BstMWI GCNNNNNNNGC 5 cut(s) 17, 132, 141, 548, 574
BstNI CCWGG 1 cut(s) 202
BstSCI CCNGG 1 cut(s) 200
BstUI CGCG 1 cut(s) 90
BstV1I GCAGC 2 cut(s) 4, 431
BstV2I GAAGAC 1 cut(s) 510
BstXI CCANNNNNNTGG 1 cut(s) 606
BstZ17I GTATAC 1 cut(s) 458
Bsu36I CCTNAGG 1 cut(s) 234
BsuI GTATCC 1 cut(s) 370
BtgZI GCGATG 1 cut(s) 507
BtsCI GGATG 2 cut(s) 64, 118
BtsI GCAGTG 1 cut(s) 692
BtsIMutI CAGTG 2 cut(s) 507, 692
CaiI CAGNNNCTG 1 cut(s) 391
CfoI GCGC 1 cut(s) 92
Cfr13I GGNCC 1 cut(s) 204
Csp6I GTAC 1 cut(s) 596
CviAII CATG 3 cut(s) 373, 521, 569
CviJI RGCY 6 cut(s) 11, 192, 268, 285, 451, 577
CviKI_1 RGCY 6 cut(s) 11, 192, 268, 285, 451, 577
CviQI GTAC 1 cut(s) 596
DdeI CTNAG 4 cut(s) 234, 261, 488, 578
Eam1104I CTCTTC 5 cut(s) 29, 46, 82, 191, 317
EarI CTCTTC 5 cut(s) 29, 46, 82, 191, 317
EciI GGCGGA 2 cut(s) 20, 672
Eco32I GATATC 1 cut(s) 347
Eco47I GGWCC 1 cut(s) 204
Eco57I CTGAAG 1 cut(s) 172
Eco81I CCTNAGG 1 cut(s) 234
EcoRII CCWGG 1 cut(s) 200
EcoRV GATATC 1 cut(s) 347
FaeI CATG 3 cut(s) 376, 524, 572
FaiI YATR 6 cut(s) 290, 374, 440, 458, 522, 570
FaqI GGGAC 1 cut(s) 278
FatI CATG 3 cut(s) 372, 520, 568
FauI CCCGC 5 cut(s) 64, 95, 140, 157, 518
FblI GTMKAC 1 cut(s) 457
Fnu4HI GCNGC 2 cut(s) 18, 420
FokI GGATG 2 cut(s) 51, 105
Fsp4HI GCNGC 2 cut(s) 18, 420
FspBI CTAG 1 cut(s) 336
GlaI GCGC 1 cut(s) 91
GluI GCNGC 2 cut(s) 18, 420
HhaI GCGC 1 cut(s) 92
Hin1II CATG 3 cut(s) 376, 524, 572
Hin6I GCGC 1 cut(s) 90
HinP1I GCGC 1 cut(s) 90
HindIII AAGCTT 1 cut(s) 9
HinfI GANTC 3 cut(s) 167, 212, 243
HphI GGTGA 1 cut(s) 629
Hpy166II GTNNAC 2 cut(s) 255, 458
Hpy188I TCNGA 6 cut(s) 166, 217, 262, 276, 316, 628
Hpy188III TCNNGA 2 cut(s) 233, 359
Hpy8I GTNNAC 2 cut(s) 255, 458
Hpy99I CGWCG 1 cut(s) 182
HpyAV CCTTC 3 cut(s) 46, 541, 644
HpyCH4III ACNGT 2 cut(s) 511, 589
HpyCH4V TGCA 2 cut(s) 419, 568
HpyF10VI GCNNNNNNNGC 5 cut(s) 17, 132, 141, 548, 574
HpyF3I CTNAG 4 cut(s) 234, 261, 488, 578
Hsp92II CATG 3 cut(s) 376, 524, 572
HspAI GCGC 1 cut(s) 90
KpnI GGTACC 1 cut(s) 599
LmnI GCTCC 1 cut(s) 290
LpnPI CCDG 7 cut(s) 187, 214, 246, 371, 383, 430, 633
Lsp1109I GCAGC 2 cut(s) 4, 431
LweI GCATC 2 cut(s) 73, 474
MaeI CTAG 1 cut(s) 336
MaeIII GTNAC 1 cut(s) 244
MboII GAAGA 9 cut(s) 16, 19, 33, 36, 69, 178, 303, 334, 515
MhlI GDGCHC 1 cut(s) 406
MluCI AATT 3 cut(s) 103, 111, 663
MlyI GAGTC 2 cut(s) 206, 252
MmeI TCCRAC 1 cut(s) 495
MroXI GAANNNNTTC 1 cut(s) 633
MseI TTAA 1 cut(s) 648
MslI CAYNNNNRTG 1 cut(s) 482
MspA1I CMGCKG 1 cut(s) 17
MspR9I CCNGG 1 cut(s) 202
MvaI CCWGG 1 cut(s) 202
MvnI CGCG 1 cut(s) 90
MwoI GCNNNNNNNGC 5 cut(s) 17, 132, 141, 548, 574
NlaIII CATG 3 cut(s) 376, 524, 572
NlaIV GGNNCC 4 cut(s) 231, 286, 597, 615
NmuCI GTSAC 1 cut(s) 244
PdmI GAANNNNTTC 1 cut(s) 633
PfeI GAWTC 1 cut(s) 167
PflFI GACNNNGTC 1 cut(s) 242
PkrI GCNGC 2 cut(s) 19, 421
PleI GAGTC 2 cut(s) 206, 251
PpsI GAGTC 2 cut(s) 206, 251
Psp6I CCWGG 1 cut(s) 200
PspGI CCWGG 1 cut(s) 200
PspN4I GGNNCC 4 cut(s) 231, 286, 597, 615
PspPI GGNCC 1 cut(s) 204
PstNI CAGNNNCTG 1 cut(s) 391
PsyI GACNNNGTC 1 cut(s) 242
RsaI GTAC 1 cut(s) 597
RsaNI GTAC 1 cut(s) 596
RseI CAYNNNNRTG 1 cut(s) 482
SaqAI TTAA 1 cut(s) 648
SatI GCNGC 2 cut(s) 18, 420
Sau96I GGNCC 1 cut(s) 204
SchI GAGTC 2 cut(s) 206, 252
ScrFI CCNGG 1 cut(s) 202
SduI GDGCHC 1 cut(s) 406
SetI ASST 9 cut(s) 13, 186, 194, 329, 534, 562, 579, 642, 678
SfaNI GCATC 2 cut(s) 73, 474
SinI GGWCC 1 cut(s) 204
SmiMI CAYNNNNRTG 1 cut(s) 482
SpeI ACTAGT 1 cut(s) 335
Sse9I AATT 3 cut(s) 103, 111, 663
SspMI CTAG 1 cut(s) 336
StyD4I CCNGG 1 cut(s) 200
TaaI ACNGT 2 cut(s) 511, 589
TasI AATT 3 cut(s) 103, 111, 663
TfiI GAWTC 1 cut(s) 167
Tru1I TTAA 1 cut(s) 648
Tru9I TTAA 1 cut(s) 648
TscAI CASTG 2 cut(s) 514, 692
TseFI GTSAC 1 cut(s) 244
TseI GCWGC 2 cut(s) 17, 419
Tsp45I GTSAC 1 cut(s) 244
TspDTI ATGAA 1 cut(s) 585
TspRI CASTG 2 cut(s) 514, 692
Tth111I GACNNNGTC 1 cut(s) 242
VpaK11BI GGWCC 1 cut(s) 204
XmiI GTMKAC 1 cut(s) 457
XmnI GAANNNNTTC 1 cut(s) 633
XspI CTAG 1 cut(s) 336
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.