RchiOBHm_Chr3g0473081

YLS9-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0016885
Physical Location & Seq
Forward (+)
19081102 .. 19082019
918 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ43876

Sequence Viewer

Length: 576 bp
ATGTTTGGGAAGCTGTGTCTCTTTTGTTGCGTCATCCCTCTGGTGCTAACTGCTGTTACCATGCTTGGAACGTTTCTTTGGCTGCGTAAGGAGATGAAAAAAATGGATTTGGGACTGGAGTACACGGTGTCCGACGGCGTGCTGAACACGTTTTCCATGACGCCCAACAAGACCCTCGATTACGATCTAGCCTTGACTATAACTGCTGAGAATAAGTTGAGCGCTAATACTAAAATAAAGTGGGAAGAGTTTGAAACTACTCCTGTTTACGAGGATGTGGAATTGGGTAAGGTTGATTTGGCCCCGTTTGAGATAATTAAGGTCGACAAGAAGGAACTCAAACCATCGTACAAGGGGGTGAAACAGATGTCTGGTAATGTTGACGCTTCAAAGGTGAAGAACCTTAAGCTTGTCGATATTGTTTTGAAGCTTGAGGCCAAGATAAAGGTCGATACTGCTTTCGGTTTCAAGGTTAAAAACAAATTCAAATATGAGTGCAAGTTGAAGGTTCCTACAAAATCGGGTGGTGAAAAATTCAAAAGTACCAAGTGTGAGAGAAAGAAACAGAGTAGCTAA
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

191

Amino Acids

21.61

Weight (kDa)

9.32

Isoelectric Point (pI)

17.62

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0016885)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g18520
malus_domestica MD12G1035000.v1.1
prunus_persica Prupe.7G112100_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0473081
rosa_laevigata RLG00000024030
rosa_multiflora Rmu_sc0006336.1_g000002 Rmu_sc0006336.1_g000003
rosa_roxburghii Rroxscaffold_6G00408330
rosa_rugosa Rorug03G0131400
rosa_samantha Rh3AG182800 Rh3BG209300 Rh3CG206300 Rh3DG206300
rosa_wichuraiana Rw3G016020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 324
AclI AACGTT 1 cut(s) 71
AcsI RAATTY 2 cut(s) 482, 533
AcyI GRCGYC 1 cut(s) 161
AfaI GTAC 3 cut(s) 122, 350, 544
AfeI AGCGCT 1 cut(s) 223
AflII CTTAAG 1 cut(s) 404
AflIII ACRYGT 1 cut(s) 147
AgsI TTSAA 7 cut(s) 254, 390, 427, 469, 487, 505, 538
AjuI GAANNNNNNNTTGG 2 cut(s) 61, 93
AloI GAACNNNNNNTCC 2 cut(s) 137, 169
AluBI AGCT 4 cut(s) 13, 409, 430, 573
AluI AGCT 4 cut(s) 13, 409, 430, 573
Alw26I GTCTC 1 cut(s) 23
Aor51HI AGCGCT 1 cut(s) 223
AoxI GGCC 2 cut(s) 300, 435
ApeKI GCWGC 1 cut(s) 82
ApoI RAATTY 2 cut(s) 482, 533
AspLEI GCGC 1 cut(s) 224
AspS9I GGNCC 1 cut(s) 301
AsuHPI GGTGA 3 cut(s) 370, 406, 539
BbvI GCAGC 1 cut(s) 69
BccI CCATC 1 cut(s) 352
BceAI ACGGC 1 cut(s) 151
BcoDI GTCTC 1 cut(s) 23
BfaI CTAG 1 cut(s) 188
BfoI RGCGCY 1 cut(s) 225
BfrI CTTAAG 1 cut(s) 404
BisI GCNGC 1 cut(s) 83
BlsI GCNGC 1 cut(s) 84
BmgT120I GGNCC 1 cut(s) 301
BmiI GGNNCC 2 cut(s) 303, 510
BpmI CTGGAG 1 cut(s) 137
BpuEI CTTGAG 1 cut(s) 452
BsaBI GATNNNNATC 1 cut(s) 183
BsaHI GRCGYC 1 cut(s) 161
Bse1I ACTGG 1 cut(s) 120
Bse8I GATNNNNATC 1 cut(s) 183
BseGI GGATG 2 cut(s) 33, 280
BseJI GATNNNNATC 1 cut(s) 183
BseMII CTCAG 1 cut(s) 198
BseNI ACTGG 1 cut(s) 120
BseXI GCAGC 1 cut(s) 69
BshFI GGCC 2 cut(s) 302, 437
BslFI GGGAC 1 cut(s) 126
BsmAI GTCTC 1 cut(s) 23
BsmFI GGGAC 1 cut(s) 126
BsnI GGCC 2 cut(s) 302, 437
Bsp143I GATC 1 cut(s) 184
BspANI GGCC 2 cut(s) 302, 437
BspCNI CTCAG 1 cut(s) 199
BspLI GGNNCC 2 cut(s) 303, 510
BspTI CTTAAG 1 cut(s) 404
BsrI ACTGG 1 cut(s) 120
BssMI GATC 1 cut(s) 184
BssNI GRCGYC 1 cut(s) 161
Bst4CI ACNGT 1 cut(s) 127
Bst6I CTCTTC 1 cut(s) 240
BstACI GRCGYC 1 cut(s) 161
BstAFI CTTAAG 1 cut(s) 404
BstC8I GCNNGC 1 cut(s) 140
BstDEI CTNAG 1 cut(s) 207
BstF5I GGATG 2 cut(s) 33, 280
BstH2I RGCGCY 1 cut(s) 225
BstHHI GCGC 1 cut(s) 224
BstKTI GATC 1 cut(s) 187
BstMAI GTCTC 1 cut(s) 23
BstMBI GATC 1 cut(s) 184
BstV1I GCAGC 1 cut(s) 69
BsuRI GGCC 2 cut(s) 302, 437
BtsCI GGATG 2 cut(s) 33, 280
Cac8I GCNNGC 1 cut(s) 140
CfoI GCGC 1 cut(s) 224
Cfr13I GGNCC 1 cut(s) 301
CseI GACGC 3 cut(s) 19, 169, 392
Csp6I GTAC 3 cut(s) 121, 349, 543
CviAII CATG 2 cut(s) 61, 157
CviJI RGCY 8 cut(s) 13, 82, 191, 302, 409, 430, 437, 573
CviKI_1 RGCY 8 cut(s) 13, 82, 191, 302, 409, 430, 437, 573
CviQI GTAC 3 cut(s) 121, 349, 543
DdeI CTNAG 1 cut(s) 207
DpnI GATC 1 cut(s) 186
DpnII GATC 1 cut(s) 184
Eam1104I CTCTTC 1 cut(s) 240
EarI CTCTTC 1 cut(s) 240
Eco47III AGCGCT 1 cut(s) 223
FaeI CATG 2 cut(s) 64, 160
FaiI YATR 4 cut(s) 62, 158, 200, 492
FaqI GGGAC 1 cut(s) 126
FatI CATG 2 cut(s) 60, 156
FblI GTMKAC 1 cut(s) 324
Fnu4HI GCNGC 1 cut(s) 83
FokI GGATG 2 cut(s) 20, 287
Fsp4HI GCNGC 1 cut(s) 83
FspBI CTAG 1 cut(s) 188
GlaI GCGC 1 cut(s) 223
GluI GCNGC 1 cut(s) 83
GsuI CTGGAG 1 cut(s) 137
HaeII RGCGCY 1 cut(s) 225
HaeIII GGCC 2 cut(s) 302, 437
HgaI GACGC 3 cut(s) 19, 169, 392
HhaI GCGC 1 cut(s) 224
Hin1I GRCGYC 1 cut(s) 161
Hin1II CATG 2 cut(s) 64, 160
Hin6I GCGC 1 cut(s) 222
HinP1I GCGC 1 cut(s) 222
HincII GTYRAC 2 cut(s) 325, 382
HindII GTYRAC 2 cut(s) 325, 382
HindIII AAGCTT 2 cut(s) 407, 428
HphI GGTGA 3 cut(s) 370, 406, 539
Hpy166II GTNNAC 4 cut(s) 123, 268, 325, 382
Hpy188I TCNGA 1 cut(s) 133
Hpy8I GTNNAC 4 cut(s) 123, 268, 325, 382
Hpy99I CGWCG 1 cut(s) 137
HpyAV CCTTC 2 cut(s) 325, 499
HpyCH4III ACNGT 1 cut(s) 127
HpyCH4IV ACGT 2 cut(s) 71, 149
HpyCH4V TGCA 1 cut(s) 498
HpyF3I CTNAG 1 cut(s) 207
HpySE526I ACGT 2 cut(s) 71, 149
Hsp92I GRCGYC 1 cut(s) 161
Hsp92II CATG 2 cut(s) 64, 160
HspAI GCGC 1 cut(s) 222
Kzo9I GATC 1 cut(s) 184
LpnPI CCDG 4 cut(s) 26, 101, 276, 357
Lsp1109I GCAGC 1 cut(s) 69
MaeI CTAG 1 cut(s) 188
MaeII ACGT 2 cut(s) 71, 149
MaeIII GTNAC 1 cut(s) 55
MalI GATC 1 cut(s) 186
MboI GATC 1 cut(s) 184
MboII GAAGA 2 cut(s) 257, 409
MluCI AATT 4 cut(s) 281, 315, 482, 533
MmeI TCCRAC 1 cut(s) 156
MnlI CCTC 4 cut(s) 48, 185, 265, 427
MseI TTAA 3 cut(s) 318, 405, 474
MspCI CTTAAG 1 cut(s) 404
NdeII GATC 1 cut(s) 184
NlaIII CATG 2 cut(s) 64, 160
NlaIV GGNNCC 2 cut(s) 303, 510
PkrI GCNGC 1 cut(s) 84
Psp1406I AACGTT 1 cut(s) 71
PspN4I GGNNCC 2 cut(s) 303, 510
PspPI GGNCC 1 cut(s) 301
RsaI GTAC 3 cut(s) 122, 350, 544
RsaNI GTAC 3 cut(s) 121, 349, 543
SalI GTCGAC 1 cut(s) 323
SaqAI TTAA 3 cut(s) 318, 405, 474
SatI GCNGC 1 cut(s) 83
Sau3AI GATC 1 cut(s) 184
Sau96I GGNCC 1 cut(s) 301
SmlI CTYRAG 2 cut(s) 404, 431
SmoI CTYRAG 2 cut(s) 404, 431
Sse9I AATT 4 cut(s) 281, 315, 482, 533
SspMI CTAG 1 cut(s) 188
TaaI ACNGT 1 cut(s) 127
TaiI ACGT 2 cut(s) 74, 152
TaqI TCGA 4 cut(s) 177, 324, 414, 450
TasI AATT 4 cut(s) 281, 315, 482, 533
TatI WGTACW 1 cut(s) 120
Tru1I TTAA 3 cut(s) 318, 405, 474
Tru9I TTAA 3 cut(s) 318, 405, 474
TseI GCWGC 1 cut(s) 82
TspDTI ATGAA 1 cut(s) 110
Vha464I CTTAAG 1 cut(s) 404
XapI RAATTY 2 cut(s) 482, 533
XmiI GTMKAC 1 cut(s) 324
XspI CTAG 1 cut(s) 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.