Rorug06G0168100

domain in transcription factors and synapse-associated proteins

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0013523
Physical Location & Seq
Forward (+)
24729800 .. 24733766
3967 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0168100.1

Sequence Viewer

Length: 897 bp
ATGGTCGAGGAGGATGAGGAGGAGGAAGAGGAGGACGACGACGATGATGAATACGGCCCCTATCGTGGCGGCAGCGGCGGGAGTCCTGCAAGGTTCGGATTCATACTCGATGAACAACTAAAGGAAGCTGTTGCCTGTGATGAAGTGAAAGCTACTCTATCAGCTAAAATTAGCAGAGAGCGAATTGGAGCTGAAATTGATCTGATGATCTCCGGAAACCAACCTGCCCAAGCTATGACCTATATATGTGACTTGAAGTTATTTTGGGTTGTCTTCAGTCTTCATCCACAGTGTGAGCCATCAGAAGGATGTGACAGCGATTGTGTTGCGTACTTGGATTTTACTTGGAATCTTATTCAATTAGTGGGGCACTCTACCTTCAATGACGAACAAAGAAGGCTCTCCTTTTATGCTGCAATGCTCCTTCCACTTAGGAAGACCATGTATAAAGATAGGAAAGCAAAAGATGTCACCAAAGGTGTCTTGAGCTGTGCAACCCAGGAAGTAAAGGATCTCTTCCATCTCCTGGAGCATGAATTTCTACCTCTCGACCTTGCTGTAAAGATACAACCACTGTTGACTAAAATCTCAAAATTTGGGGGTAAGATGGCTTTAGCTTCTTCTGTTCCTGAAGTGCAACTGTCTCAATATGTTCCTGCCCTTGAAAAGCTTGGTACTTTGAGGTTGCTCCAGCAGGTGTCTCGGGTGTATCAGTCGATGAAGATTGAACATCTATCTCGGATGATCCCATTTTATGACTTTTCTGTTGTAGAGAAGATATATGTGGATGCTGTTAAACATAACTTCATAGCTATGAAAGCCGACCATATGAAGGGTGTTATGATGTTTGGTAACTTGAATAAGAATCCTTTATTGAAAATAACCAAGATTACATAA
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
BSD

Protein Analysis

298

Amino Acids

33.77

Weight (kDa)

5.2

Isoelectric Point (pI)

45.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCI PF01399 213 - 283 5.8e-06 PCI domain
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: OG0013523)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G24820
fragaria_vesca FvH4_2g19070
malus_domestica MD05G1175500.v1.1 MD10G1164600.v1.1
prunus_persica Prupe.8G203200_v2.0.a1 Prupe.8G203200_v2.0.a1 Prupe.8G203200_v2.0.a1
pyrus_communis pycom10g14190
rosa_chinensis RchiOBHm_Chr6g0284891
rosa_laevigata RLG00000012704
rosa_roxburghii Rroxscaffold_7G00184250
rosa_rugosa Rorug06G0168100 Rorug06G0168200
rosa_samantha Rh6AG280500 Rh6BG280800 Rh6CG282800 Rh6DG275900
rosa_wichuraiana Rw6G024100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 685
Acc36I ACCTGC 2 cut(s) 232, 685
AccB7I CCANNNNNTGG 1 cut(s) 526
AccIII TCCGGA 1 cut(s) 212
AciI CCGC 3 cut(s) 69, 75, 78
AclWI GGATC 2 cut(s) 519, 739
AcsI RAATTY 2 cut(s) 536, 593
AcuI CTGAAG 2 cut(s) 259, 651
AdeI CACNNNGTG 1 cut(s) 293
AfaI GTAC 2 cut(s) 332, 676
AfiI CCNNNNNNNGG 4 cut(s) 65, 305, 526, 832
AgsI TTSAA 7 cut(s) 256, 359, 382, 665, 728, 859, 877
AjnI CCWGG 2 cut(s) 498, 525
AluBI AGCT 9 cut(s) 128, 152, 164, 191, 233, 489, 617, 670, 812
AluI AGCT 9 cut(s) 128, 152, 164, 191, 233, 489, 617, 670, 812
Alw26I GTCTC 2 cut(s) 648, 705
AlwI GGATC 2 cut(s) 519, 739
Ama87I CYCGRG 1 cut(s) 702
Aor13HI TCCGGA 1 cut(s) 212
AoxI GGCC 1 cut(s) 55
ApeKI GCWGC 2 cut(s) 72, 413
ApoI RAATTY 2 cut(s) 536, 593
AspS9I GGNCC 1 cut(s) 56
AsuHPI GGTGA 1 cut(s) 463
AvaI CYCGRG 1 cut(s) 702
BaeGI GKGCMC 1 cut(s) 372
BbsI GAAGAC 3 cut(s) 265, 272, 443
BbvI GCAGC 2 cut(s) 84, 400
BccI CCATC 3 cut(s) 307, 528, 601
BceAI ACGGC 1 cut(s) 70
BcgI CGANNNNNNTGC 4 cut(s) 308, 342, 683, 717
BciT130I CCWGG 2 cut(s) 500, 527
BcoDI GTCTC 2 cut(s) 648, 705
BfuAI ACCTGC 2 cut(s) 232, 685
BisI GCNGC 4 cut(s) 70, 73, 76, 414
BlsI GCNGC 4 cut(s) 71, 74, 77, 415
Bme1390I CCNGG 2 cut(s) 500, 527
BmeT110I CYCGRG 1 cut(s) 702
BmgT120I GGNCC 1 cut(s) 56
BmiI GGNNCC 1 cut(s) 58
BmrFI CCNGG 2 cut(s) 500, 527
BmsI GCATC 1 cut(s) 778
BpiI GAAGAC 3 cut(s) 265, 272, 443
BpmI CTGGAG 2 cut(s) 548, 674
BpuEI CTTGAG 1 cut(s) 505
BsaJI CCNNGG 1 cut(s) 498
BsaWI WCCGGW 1 cut(s) 212
Bsc4I CCNNNNNNNGG 4 cut(s) 65, 305, 526, 832
Bse3DI GCAATG 1 cut(s) 423
BseAI TCCGGA 1 cut(s) 212
BseBI CCWGG 2 cut(s) 500, 527
BseDI CCNNGG 1 cut(s) 498
BseGI GGATG 5 cut(s) 19, 283, 314, 747, 793
BseLI CCNNNNNNNGG 4 cut(s) 65, 305, 526, 832
BseMI GCAATG 1 cut(s) 423
BseRI GAGGAG 4 cut(s) 23, 32, 35, 44
BseSI GKGCMC 1 cut(s) 372
BseXI GCAGC 2 cut(s) 84, 400
BshFI GGCC 1 cut(s) 57
BsiHKCI CYCGRG 1 cut(s) 702
BsiSI CCGG 1 cut(s) 213
BslI CCNNNNNNNGG 4 cut(s) 65, 305, 526, 832
BsmAI GTCTC 2 cut(s) 648, 705
BsnI GGCC 1 cut(s) 57
BsoBI CYCGRG 1 cut(s) 702
Bsp1286I GDGCHC 1 cut(s) 372
Bsp13I TCCGGA 1 cut(s) 212
Bsp143I GATC 4 cut(s) 199, 207, 511, 744
BspACI CCGC 3 cut(s) 69, 75, 78
BspANI GGCC 1 cut(s) 57
BspEI TCCGGA 1 cut(s) 212
BspLI GGNNCC 1 cut(s) 58
BspMI ACCTGC 2 cut(s) 232, 685
BspPI GGATC 2 cut(s) 519, 739
BsrDI GCAATG 1 cut(s) 423
BssECI CCNNGG 1 cut(s) 498
BssMI GATC 4 cut(s) 199, 207, 511, 744
Bst2UI CCWGG 2 cut(s) 500, 527
Bst4CI ACNGT 3 cut(s) 291, 576, 642
Bst6I CTCTTC 2 cut(s) 21, 521
BstDEI CTNAG 1 cut(s) 431
BstF5I GGATG 5 cut(s) 19, 283, 314, 747, 793
BstKTI GATC 4 cut(s) 202, 210, 514, 747
BstMAI GTCTC 2 cut(s) 648, 705
BstMBI GATC 4 cut(s) 199, 207, 511, 744
BstMWI GCNNNNNNNGC 2 cut(s) 75, 818
BstNI CCWGG 2 cut(s) 500, 527
BstSCI CCNGG 2 cut(s) 498, 525
BstSLI GKGCMC 1 cut(s) 372
BstV1I GCAGC 2 cut(s) 84, 400
BstV2I GAAGAC 3 cut(s) 265, 272, 443
BstX2I RGATCY 1 cut(s) 511
BstYI RGATCY 1 cut(s) 511
BsuRI GGCC 1 cut(s) 57
BtsCI GGATG 5 cut(s) 19, 283, 314, 747, 793
BtsIMutI CAGTG 2 cut(s) 296, 572
BveI ACCTGC 2 cut(s) 232, 685
Cfr13I GGNCC 1 cut(s) 56
Csp6I GTAC 2 cut(s) 331, 675
CviAII CATG 2 cut(s) 442, 533
CviQI GTAC 2 cut(s) 331, 675
DdeI CTNAG 1 cut(s) 431
DpnI GATC 4 cut(s) 201, 209, 513, 746
DpnII GATC 4 cut(s) 199, 207, 511, 744
DraIII CACNNNGTG 1 cut(s) 293
Eam1104I CTCTTC 2 cut(s) 21, 521
EarI CTCTTC 2 cut(s) 21, 521
Eco57I CTGAAG 2 cut(s) 259, 651
Eco88I CYCGRG 1 cut(s) 702
EcoRII CCWGG 2 cut(s) 498, 525
FaeI CATG 2 cut(s) 445, 536
FalI AAGNNNNNCTT 2 cut(s) 500, 532
FatI CATG 2 cut(s) 441, 532
FauI CCCGC 1 cut(s) 71
FauNDI CATATG 1 cut(s) 828
Fnu4HI GCNGC 4 cut(s) 70, 73, 76, 414
FokI GGATG 5 cut(s) 26, 270, 321, 754, 800
Fsp4HI GCNGC 4 cut(s) 70, 73, 76, 414
GluI GCNGC 4 cut(s) 70, 73, 76, 414
GsuI CTGGAG 2 cut(s) 548, 674
HaeIII GGCC 1 cut(s) 57
HapII CCGG 1 cut(s) 213
Hin1II CATG 2 cut(s) 445, 536
HincII GTYRAC 1 cut(s) 579
HindII GTYRAC 1 cut(s) 579
HindIII AAGCTT 1 cut(s) 668
HinfI GANTC 4 cut(s) 82, 99, 349, 865
HpaII CCGG 1 cut(s) 213
HphI GGTGA 1 cut(s) 463
Hpy166II GTNNAC 1 cut(s) 579
Hpy188I TCNGA 4 cut(s) 98, 204, 304, 741
Hpy188III TCNNGA 4 cut(s) 213, 484, 548, 629
Hpy8I GTNNAC 1 cut(s) 579
Hpy99I CGWCG 2 cut(s) 41, 44
HpyAV CCTTC 5 cut(s) 299, 388, 390, 434, 826
HpyCH4III ACNGT 3 cut(s) 291, 576, 642
HpyCH4V TGCA 4 cut(s) 89, 416, 494, 637
HpyF10VI GCNNNNNNNGC 2 cut(s) 75, 818
HpyF3I CTNAG 1 cut(s) 431
Hsp92II CATG 2 cut(s) 445, 536
Kpn2I TCCGGA 1 cut(s) 212
Kzo9I GATC 4 cut(s) 199, 207, 511, 744
LmnI GCTCC 4 cut(s) 188, 426, 529, 693
Lsp1109I GCAGC 2 cut(s) 84, 400
LweI GCATC 1 cut(s) 778
MaeIII GTNAC 4 cut(s) 248, 311, 469, 851
MalI GATC 4 cut(s) 201, 209, 513, 746
MboI GATC 4 cut(s) 199, 207, 511, 744
MboII GAAGA 8 cut(s) 38, 265, 272, 448, 508, 612, 733, 787
MflI RGATCY 1 cut(s) 511
MhlI GDGCHC 1 cut(s) 372
MluCI AATT 6 cut(s) 168, 183, 195, 359, 536, 593
MlyI GAGTC 1 cut(s) 91
MnlI CCTC 8 cut(s) 4, 10, 13, 16, 22, 25, 555, 675
MroI TCCGGA 1 cut(s) 212
MseI TTAA 1 cut(s) 795
MslI CAYNNNNRTG 1 cut(s) 812
MspA1I CMGCKG 1 cut(s) 75
MspI CCGG 1 cut(s) 213
MspR9I CCNGG 2 cut(s) 500, 527
MvaI CCWGG 2 cut(s) 500, 527
MwoI GCNNNNNNNGC 2 cut(s) 75, 818
NdeI CATATG 1 cut(s) 828
NdeII GATC 4 cut(s) 199, 207, 511, 744
NlaIII CATG 2 cut(s) 445, 536
NlaIV GGNNCC 1 cut(s) 58
NmuCI GTSAC 3 cut(s) 248, 311, 469
PaqCI CACCTGC 1 cut(s) 685
PfeI GAWTC 3 cut(s) 99, 349, 865
PflMI CCANNNNNTGG 1 cut(s) 526
PfoI TCCNGGA 1 cut(s) 525
PkrI GCNGC 4 cut(s) 71, 74, 77, 415
PleI GAGTC 1 cut(s) 90
PpsI GAGTC 1 cut(s) 90
Psp6I CCWGG 2 cut(s) 498, 525
PspGI CCWGG 2 cut(s) 498, 525
PspN4I GGNNCC 1 cut(s) 58
PspPI GGNCC 1 cut(s) 56
PsuI RGATCY 1 cut(s) 511
RsaI GTAC 2 cut(s) 332, 676
RsaNI GTAC 2 cut(s) 331, 675
RseI CAYNNNNRTG 1 cut(s) 812
SaqAI TTAA 1 cut(s) 795
SatI GCNGC 4 cut(s) 70, 73, 76, 414
Sau3AI GATC 4 cut(s) 199, 207, 511, 744
Sau96I GGNCC 1 cut(s) 56
SchI GAGTC 1 cut(s) 91
ScrFI CCNGG 2 cut(s) 500, 527
SduI GDGCHC 1 cut(s) 372
SfaNI GCATC 1 cut(s) 778
SmiMI CAYNNNNRTG 1 cut(s) 812
SmlI CTYRAG 1 cut(s) 484
SmoI CTYRAG 1 cut(s) 484
Sse9I AATT 6 cut(s) 168, 183, 195, 359, 536, 593
SsiI CCGC 3 cut(s) 69, 75, 78
StyD4I CCNGG 2 cut(s) 498, 525
TaaI ACNGT 3 cut(s) 291, 576, 642
TaqI TCGA 4 cut(s) 6, 108, 549, 716
TasI AATT 6 cut(s) 168, 183, 195, 359, 536, 593
TauI GCSGC 2 cut(s) 72, 78
TfiI GAWTC 3 cut(s) 99, 349, 865
Tru1I TTAA 1 cut(s) 795
Tru9I TTAA 1 cut(s) 795
TscAI CASTG 2 cut(s) 296, 579
TseFI GTSAC 3 cut(s) 248, 311, 469
TseI GCWGC 2 cut(s) 72, 413
Tsp45I GTSAC 3 cut(s) 248, 311, 469
TspRI CASTG 2 cut(s) 296, 579
Van91I CCANNNNNTGG 1 cut(s) 526
XapI RAATTY 2 cut(s) 536, 593
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.