Rroxscaffold_1G00063280

YLS9-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0019426
Physical Location & Seq
Reverse (-)
85191817 .. 85192759
943 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00063280.1

Sequence Viewer

Length: 690 bp
ATGTGTCCAAAGGGGAAAACAATGCTCTGCATCATCCTCAGTTTGCTGCTCATAGGAGCTGTAGCAGTAACACTAGTCAAAATACTCATCTTCAATCCACCCAACCTCAAAGTCACAGTCACCAATGCCTCTTTGGCTCAATTCAATCTCAGCAACAATAATGACACTCTTTTCTACAAGATTGCGCTCACCATCACCACCAGAAACCTCAACCATCCTGCTAATAAAGATGTGCTCTACAGTAGAATCGAAGCCATTGCCAAATACAGGACGGAGAGCTTTGCTAAGTGGACTTTGAGTTCGCCGCCATTCAAACAACACCGCAAGAGCACGACGATTCTGCAATATCCAGCTATTCAAGGGCAACAACCGGTGAGGTTTTCCAAAGTGAACTCTCCCAGTTTAACCGGGAGAGTGTCATTGGCGTTTACAGAGAGGTTAAGAAAGGCGGGAGTATTTGTTTCGGCGAGTAACTTGGGAGGTTCTGGTTCCCAAAAGGGATGGAGGCTTTTGTGGGGTTTGAAACTCCCTAATAAAATTAAAGTTTTCCTGTGGAGAGCTTGTAATGGGTACCTACCGTGTGCAGCTGCGTTGAGGAAGAGAAGAATTAGGGATAATGGGCGGTGTCGATCTGGGGTGTGGGTATGGAGAAGGAAAAATTCTTGCGTACATCACACCTGGTACGCCTGA
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
LEA_2

Protein Analysis

229

Amino Acids

25.82

Weight (kDa)

10.95

Isoelectric Point (pI)

42.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 164 - 210 3.8e-06 zinc-binding in reverse transcriptase
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: OG0019426)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0013231
rosa_laevigata RLG00000031999
rosa_multiflora Rmu_sc0004521.1_g000013
rosa_roxburghii Rroxscaffold_1G00063280
rosa_rugosa Rorug05G0008100
rosa_samantha Rh5AG102900 Rh5DG098500
rosa_wichuraiana Rw5G008980

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 570
AccB1I GGYRCC 1 cut(s) 570
AciI CCGC 4 cut(s) 305, 322, 449, 622
AcsI RAATTY 1 cut(s) 658
AfaI GTAC 3 cut(s) 572, 669, 683
AfiI CCNNNNNNNGG 1 cut(s) 267
AgeI ACCGGT 1 cut(s) 370
AgsI TTSAA 5 cut(s) 94, 145, 313, 359, 523
AhlI ACTAGT 1 cut(s) 73
AjnI CCWGG 1 cut(s) 677
AloI GAACNNNNNNTCC 2 cut(s) 283, 315
AluBI AGCT 5 cut(s) 59, 279, 353, 560, 587
AluI AGCT 5 cut(s) 59, 279, 353, 560, 587
Alw21I GWGCWC 2 cut(s) 237, 332
ApeKI GCWGC 3 cut(s) 46, 584, 587
ApoI RAATTY 1 cut(s) 658
ArsI GACNNNNNNTTYG 4 cut(s) 102, 134, 283, 315
AsiGI ACCGGT 1 cut(s) 370
Asp718I GGTACC 1 cut(s) 570
AspLEI GCGC 1 cut(s) 187
AsuC2I CCSGG 1 cut(s) 409
AsuHPI GGTGA 4 cut(s) 112, 181, 187, 385
BanI GGYRCC 1 cut(s) 570
Bbv12I GWGCWC 2 cut(s) 237, 332
BbvI GCAGC 3 cut(s) 33, 574, 596
BccI CCATC 3 cut(s) 200, 222, 495
BcgI CGANNNNNNTGC 4 cut(s) 239, 273, 322, 356
BciT130I CCWGG 1 cut(s) 679
BcnI CCSGG 1 cut(s) 409
BcuI ACTAGT 1 cut(s) 73
BfaI CTAG 1 cut(s) 74
BfmI CTRYAG 2 cut(s) 60, 238
BglI GCCNNNNNGGC 1 cut(s) 134
BisI GCNGC 4 cut(s) 47, 305, 585, 588
BlsI GCNGC 4 cut(s) 48, 306, 586, 589
Bme1390I CCNGG 2 cut(s) 409, 679
BmiI GGNNCC 2 cut(s) 490, 572
BmrFI CCNGG 2 cut(s) 409, 679
BmrI ACTGGG 1 cut(s) 393
BmsI GCATC 1 cut(s) 39
BmuI ACTGGG 1 cut(s) 393
BpuMI CCSGG 1 cut(s) 409
BsaWI WCCGGW 1 cut(s) 370
BsaXI ACNNNNNCTCC 4 cut(s) 444, 474, 547, 577
Bsc4I CCNNNNNNNGG 1 cut(s) 267
Bse118I RCCGGY 1 cut(s) 370
Bse1I ACTGG 1 cut(s) 399
Bse3DI GCAATG 1 cut(s) 255
BseBI CCWGG 1 cut(s) 679
BseGI GGATG 3 cut(s) 33, 214, 506
BseLI CCNNNNNNNGG 1 cut(s) 267
BseMI GCAATG 1 cut(s) 255
BseMII CTCAG 2 cut(s) 52, 163
BseNI ACTGG 1 cut(s) 399
BseXI GCAGC 3 cut(s) 33, 574, 596
BsgI GTGCAG 1 cut(s) 603
BshNI GGYRCC 1 cut(s) 570
BshTI ACCGGT 1 cut(s) 370
BsiHKAI GWGCWC 2 cut(s) 237, 332
BsiSI CCGG 2 cut(s) 371, 408
BslI CCNNNNNNNGG 1 cut(s) 267
Bsp1286I GDGCHC 2 cut(s) 237, 332
Bsp143I GATC 1 cut(s) 629
BspACI CCGC 4 cut(s) 305, 322, 449, 622
BspCNI CTCAG 2 cut(s) 51, 162
BspLI GGNNCC 2 cut(s) 490, 572
BspT107I GGYRCC 1 cut(s) 570
BsrDI GCAATG 1 cut(s) 255
BsrFI RCCGGY 1 cut(s) 370
BsrI ACTGG 1 cut(s) 399
BssAI RCCGGY 1 cut(s) 370
BssMI GATC 1 cut(s) 629
Bst2UI CCWGG 1 cut(s) 679
Bst4CI ACNGT 3 cut(s) 118, 242, 579
Bst6I CTCTTC 1 cut(s) 593
BstDEI CTNAG 3 cut(s) 38, 149, 285
BstF5I GGATG 3 cut(s) 33, 214, 506
BstHHI GCGC 1 cut(s) 187
BstKTI GATC 1 cut(s) 632
BstMBI GATC 1 cut(s) 629
BstMWI GCNNNNNNNGC 1 cut(s) 134
BstNI CCWGG 1 cut(s) 679
BstSCI CCNGG 2 cut(s) 407, 677
BstSFI CTRYAG 2 cut(s) 60, 238
BstV1I GCAGC 3 cut(s) 33, 574, 596
BtsCI GGATG 3 cut(s) 33, 214, 506
CfoI GCGC 1 cut(s) 187
Cfr10I RCCGGY 1 cut(s) 370
CsiI ACCWGGT 1 cut(s) 677
Csp6I GTAC 3 cut(s) 571, 668, 682
CspAI ACCGGT 1 cut(s) 370
CviJI RGCY 8 cut(s) 59, 137, 254, 279, 353, 508, 560, 587
CviKI_1 RGCY 8 cut(s) 59, 137, 254, 279, 353, 508, 560, 587
CviQI GTAC 3 cut(s) 571, 668, 682
DdeI CTNAG 3 cut(s) 38, 149, 285
DpnI GATC 1 cut(s) 631
DpnII GATC 1 cut(s) 629
Eam1104I CTCTTC 1 cut(s) 593
EarI CTCTTC 1 cut(s) 593
EcoRII CCWGG 1 cut(s) 677
FaiI YATR 2 cut(s) 53, 646
FauI CCCGC 1 cut(s) 442
Fnu4HI GCNGC 4 cut(s) 47, 305, 585, 588
FokI GGATG 3 cut(s) 20, 201, 513
Fsp4HI GCNGC 4 cut(s) 47, 305, 585, 588
FspBI CTAG 1 cut(s) 74
GlaI GCGC 1 cut(s) 186
GluI GCNGC 4 cut(s) 47, 305, 585, 588
HapII CCGG 2 cut(s) 371, 408
HhaI GCGC 1 cut(s) 187
Hin6I GCGC 1 cut(s) 185
HinP1I GCGC 1 cut(s) 185
HinfI GANTC 2 cut(s) 246, 337
HpaII CCGG 2 cut(s) 371, 408
HphI GGTGA 4 cut(s) 112, 181, 187, 385
Hpy166II GTNNAC 3 cut(s) 291, 391, 429
Hpy8I GTNNAC 3 cut(s) 291, 391, 429
Hpy99I CGWCG 1 cut(s) 337
HpyAV CCTTC 1 cut(s) 645
HpyCH4III ACNGT 3 cut(s) 118, 242, 579
HpyCH4V TGCA 3 cut(s) 30, 343, 584
HpyF10VI GCNNNNNNNGC 1 cut(s) 134
HpyF3I CTNAG 3 cut(s) 38, 149, 285
HspAI GCGC 1 cut(s) 185
KpnI GGTACC 1 cut(s) 574
Kzo9I GATC 1 cut(s) 629
LmnI GCTCC 1 cut(s) 56
Lsp1109I GCAGC 3 cut(s) 33, 574, 596
LweI GCATC 1 cut(s) 39
MabI ACCWGGT 1 cut(s) 677
MaeI CTAG 1 cut(s) 74
MaeIII GTNAC 4 cut(s) 67, 112, 118, 470
MalI GATC 1 cut(s) 631
MboI GATC 1 cut(s) 629
MboII GAAGA 3 cut(s) 82, 610, 615
MhlI GDGCHC 2 cut(s) 237, 332
MluCI AATT 4 cut(s) 140, 537, 606, 658
MnlI CCTC 9 cut(s) 47, 116, 139, 218, 369, 429, 473, 498, 588
MseI TTAA 3 cut(s) 404, 440, 540
MspA1I CMGCKG 1 cut(s) 587
MspI CCGG 2 cut(s) 371, 408
MspR9I CCNGG 2 cut(s) 409, 679
MvaI CCWGG 1 cut(s) 679
MwoI GCNNNNNNNGC 1 cut(s) 134
NciI CCSGG 1 cut(s) 409
NdeII GATC 1 cut(s) 629
NlaIV GGNNCC 2 cut(s) 490, 572
NmuCI GTSAC 2 cut(s) 112, 118
PfeI GAWTC 2 cut(s) 246, 337
PinAI ACCGGT 1 cut(s) 370
PkrI GCNGC 4 cut(s) 48, 306, 586, 589
Psp6I CCWGG 1 cut(s) 677
PspGI CCWGG 1 cut(s) 677
PspN4I GGNNCC 2 cut(s) 490, 572
PvuII CAGCTG 1 cut(s) 587
RsaI GTAC 3 cut(s) 572, 669, 683
RsaNI GTAC 3 cut(s) 571, 668, 682
SaqAI TTAA 3 cut(s) 404, 440, 540
SatI GCNGC 4 cut(s) 47, 305, 585, 588
Sau3AI GATC 1 cut(s) 629
ScrFI CCNGG 2 cut(s) 409, 679
SduI GDGCHC 2 cut(s) 237, 332
SexAI ACCWGGT 1 cut(s) 677
SfaNI GCATC 1 cut(s) 39
SfcI CTRYAG 2 cut(s) 60, 238
SpeI ACTAGT 1 cut(s) 73
Sse9I AATT 4 cut(s) 140, 537, 606, 658
SsiI CCGC 4 cut(s) 305, 322, 449, 622
SspMI CTAG 1 cut(s) 74
StyD4I CCNGG 2 cut(s) 407, 677
TaaI ACNGT 3 cut(s) 118, 242, 579
TaqI TCGA 2 cut(s) 249, 628
TasI AATT 4 cut(s) 140, 537, 606, 658
TauI GCSGC 1 cut(s) 307
TfiI GAWTC 2 cut(s) 246, 337
Tru1I TTAA 3 cut(s) 404, 440, 540
Tru9I TTAA 3 cut(s) 404, 440, 540
TseFI GTSAC 2 cut(s) 112, 118
TseI GCWGC 3 cut(s) 46, 584, 587
Tsp45I GTSAC 2 cut(s) 112, 118
TspGWI ACGGA 1 cut(s) 287
XapI RAATTY 1 cut(s) 658
XcmI CCANNNNNNNNNTGG 1 cut(s) 130
XspI CTAG 1 cut(s) 74
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.