Rroxscaffold_3G00271600

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000328
Physical Location & Seq
Reverse (-)
63974293 .. 63976663
2371 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00271600.1

Sequence Viewer

Length: 264 bp
ATGTCACTCGTGAGAACAAGATCACCGTCACTTGTGACTCCATCTAGCTTCTCCAAGAGGTATCTCAAGTACTTGACCAAGAAACTTGAAGAAGCACAATGTGAGGGATTGGCTTCATTGTGCTTAGCTTTGCTGATTGAAGAAGATGAATGGGAAAATGAGCTCTTCTTCACCTTCGAAGGTATTCTAATTGGGAAGTCTCCATTGTTCTCACCTGTCATGACTCAGCAGCTGACCTTGCAGCACTCAAATCAAATTGCCTAA
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
No domains found.

Protein Analysis

87

Amino Acids

9.9

Weight (kDa)

5.3

Isoelectric Point (pI)

63.9

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: OG0000328)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g13832 FvH4_3g26701 FvH4_4g14350 FvH4_7g17370
malus_domestica MD12G1077900.v1.1 MD14G1070200.v1.1
prunus_persica Prupe.2G073100_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0365191 RchiOBHm_Chr2g0105141 RchiOBHm_Chr2g0120431 RchiOBHm_Chr2g0139381 RchiOBHm_Chr3g0494421 RchiOBHm_Chr6g0248181 RchiOBHm_Chr7g0235571
rosa_laevigata RLG00000005158 RLG00000008937 RLG00000013742 RLG00000015899 RLG00000019885 RLG00000024515 RLG00000024516 RLG00000028740 RLG00000030656 RLG00000030662 RLG00000032758 RLG00000035668 RLG00000036717 RLG00000036718
rosa_multiflora Rmu_sc0000252.1_g000016 Rmu_sc0001386.1_g000020 Rmu_sc0002271.1_g000010 Rmu_sc0003833.1_g000002 Rmu_sc0004718.1_g000004 Rmu_sc0006031.1_g000006 Rmu_sc0006598.1_g000013 Rmu_sc0007472.1_g000023 Rmu_sc0009313.1_g000012
rosa_roxburghii Rroxscaffold_2G00103830 Rroxscaffold_2G00109880 Rroxscaffold_3G00225910 Rroxscaffold_3G00271600 Rroxscaffold_3G00274560 Rroxscaffold_4G00299580 Rroxscaffold_5G00352530 Rroxscaffold_5G00379280 Rroxscaffold_7G00177320
rosa_rugosa Rorug01G0027200 Rorug01G0032100 Rorug02G0050600 Rorug02G0054800 Rorug04G0083300 Rorug05G0115200 Rorug07G0006800
rosa_samantha Rh1CG086700 Rh1DG093300 Rh1DG217000 Rh2AG120200 Rh2AG227900 Rh2AG254000 Rh2AG434200 Rh2AG469200 Rh2BG159500 Rh2CG419900 Rh2CG455200 Rh2DG320100 Rh2DG603500 Rh3CG319900 Rh3DG300800 Rh3DG319200 Rh4AG199400 Rh4BG329100 Rh4BG329200 Rh4CG110800 Rh4DG042000 Rh4DG129400 Rh4DG187700 Rh4DG231900 Rh5AG038800 Rh5AG107300 Rh5AG303600 Rh5AG386500 Rh5AG454200 Rh5CG041800 Rh5CG534800 Rh5DG076400 Rh5DG109800 Rh5DG123600 Rh6AG164400 Rh6BG035100 Rh6BG036000 Rh6BG041000 Rh6BG215500 Rh6CG173900 Rh6CG174000 Rh6DG020300 Rh6DG166300 Rh6DG320000 Rh6DG509700 Rh7AG059500 Rh7AG291700 Rh7BG404300 Rh7DG402000
rosa_wichuraiana Rw1G000890 Rw1G020020 Rw3G005730 Rw4G011330 Rw4G026960 Rw5G014010 Rw6G002230 Rw7G038480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AdeI CACNNNGTG 1 cut(s) 101
AfaI GTAC 1 cut(s) 71
AgsI TTSAA 2 cut(s) 89, 140
AluBI AGCT 4 cut(s) 48, 128, 163, 232
AluI AGCT 4 cut(s) 48, 128, 163, 232
Alw21I GWGCWC 1 cut(s) 165
Alw26I GTCTC 1 cut(s) 204
AlwNI CAGNNNCTG 1 cut(s) 232
ApeKI GCWGC 2 cut(s) 229, 241
Asp700I GAANNNNTTC 1 cut(s) 183
AsuHPI GGTGA 3 cut(s) 15, 163, 204
AsuII TTCGAA 1 cut(s) 177
BanII GRGCYC 1 cut(s) 165
BauI CACGAG 1 cut(s) 8
Bbv12I GWGCWC 1 cut(s) 165
BbvI GCAGC 2 cut(s) 241, 253
BccI CCATC 1 cut(s) 49
BcoDI GTCTC 1 cut(s) 204
BfaI CTAG 1 cut(s) 45
BisI GCNGC 2 cut(s) 230, 242
BlpI GCTNAGC 1 cut(s) 124
BlsI GCNGC 2 cut(s) 231, 243
BmcAI AGTACT 1 cut(s) 71
Bpu1102I GCTNAGC 1 cut(s) 124
Bpu14I TTCGAA 1 cut(s) 177
BpuEI CTTGAG 1 cut(s) 50
BseMII CTCAG 1 cut(s) 239
BseXI GCAGC 2 cut(s) 241, 253
BsiHKAI GWGCWC 1 cut(s) 165
BsmAI GTCTC 1 cut(s) 204
Bsp119I TTCGAA 1 cut(s) 177
Bsp1286I GDGCHC 1 cut(s) 165
Bsp143I GATC 1 cut(s) 20
Bsp1720I GCTNAGC 1 cut(s) 124
BspCNI CTCAG 1 cut(s) 238
BspHI TCATGA 1 cut(s) 219
BspQI GCTCTTC 1 cut(s) 170
BspT104I TTCGAA 1 cut(s) 177
BssMI GATC 1 cut(s) 20
BssSI CACGAG 1 cut(s) 8
Bst2BI CACGAG 1 cut(s) 8
Bst4CI ACNGT 1 cut(s) 27
Bst6I CTCTTC 1 cut(s) 170
BstBI TTCGAA 1 cut(s) 177
BstDEI CTNAG 2 cut(s) 124, 225
BstKTI GATC 1 cut(s) 23
BstMAI GTCTC 1 cut(s) 204
BstMBI GATC 1 cut(s) 20
BstMWI GCNNNNNNNGC 1 cut(s) 238
BstV1I GCAGC 2 cut(s) 241, 253
CaiI CAGNNNCTG 1 cut(s) 232
CciI TCATGA 1 cut(s) 219
Csp6I GTAC 1 cut(s) 70
CviAII CATG 1 cut(s) 220
CviJI RGCY 5 cut(s) 48, 113, 128, 163, 232
CviKI_1 RGCY 5 cut(s) 48, 113, 128, 163, 232
CviQI GTAC 1 cut(s) 70
DdeI CTNAG 2 cut(s) 124, 225
DpnI GATC 1 cut(s) 22
DpnII GATC 1 cut(s) 20
DraIII CACNNNGTG 1 cut(s) 101
Eam1104I CTCTTC 1 cut(s) 170
EarI CTCTTC 1 cut(s) 170
Ecl136II GAGCTC 1 cut(s) 163
Eco24I GRGCYC 1 cut(s) 165
Eco53kI GAGCTC 1 cut(s) 163
EcoICRI GAGCTC 1 cut(s) 163
EcoT38I GRGCYC 1 cut(s) 165
FaeI CATG 1 cut(s) 223
FaiI YATR 1 cut(s) 221
FatI CATG 1 cut(s) 219
Fnu4HI GCNGC 2 cut(s) 230, 242
FriOI GRGCYC 1 cut(s) 165
Fsp4HI GCNGC 2 cut(s) 230, 242
FspBI CTAG 1 cut(s) 45
GluI GCNGC 2 cut(s) 230, 242
Hin1II CATG 1 cut(s) 223
HinfI GANTC 2 cut(s) 37, 223
HphI GGTGA 3 cut(s) 15, 163, 204
Hpy188III TCNNGA 2 cut(s) 10, 220
HpyAV CCTTC 2 cut(s) 173, 184
HpyCH4III ACNGT 1 cut(s) 27
HpyCH4V TGCA 1 cut(s) 241
HpyF10VI GCNNNNNNNGC 1 cut(s) 238
HpyF3I CTNAG 2 cut(s) 124, 225
Hsp92II CATG 1 cut(s) 223
Kzo9I GATC 1 cut(s) 20
LguI GCTCTTC 1 cut(s) 170
LpnPI CCDG 1 cut(s) 228
Lsp1109I GCAGC 2 cut(s) 241, 253
MaeI CTAG 1 cut(s) 45
MaeIII GTNAC 3 cut(s) 3, 27, 34
MalI GATC 1 cut(s) 22
MboI GATC 1 cut(s) 20
MboII GAAGA 5 cut(s) 101, 152, 155, 157, 160
MhlI GDGCHC 1 cut(s) 165
MluCI AATT 2 cut(s) 189, 255
MlyI GAGTC 2 cut(s) 31, 217
MnlI CCTC 2 cut(s) 51, 97
MroXI GAANNNNTTC 1 cut(s) 183
MspA1I CMGCKG 1 cut(s) 232
MwoI GCNNNNNNNGC 1 cut(s) 238
NdeII GATC 1 cut(s) 20
NlaIII CATG 1 cut(s) 223
NmuCI GTSAC 3 cut(s) 3, 27, 34
NspV TTCGAA 1 cut(s) 177
PagI TCATGA 1 cut(s) 219
PciSI GCTCTTC 1 cut(s) 170
PdmI GAANNNNTTC 1 cut(s) 183
PkrI GCNGC 2 cut(s) 231, 243
PleI GAGTC 2 cut(s) 31, 217
PpsI GAGTC 2 cut(s) 31, 217
Psp124BI GAGCTC 1 cut(s) 165
PstNI CAGNNNCTG 1 cut(s) 232
PvuII CAGCTG 1 cut(s) 232
RsaI GTAC 1 cut(s) 71
RsaNI GTAC 1 cut(s) 70
SacI GAGCTC 1 cut(s) 165
SapI GCTCTTC 1 cut(s) 170
SatI GCNGC 2 cut(s) 230, 242
Sau3AI GATC 1 cut(s) 20
ScaI AGTACT 1 cut(s) 71
SchI GAGTC 2 cut(s) 31, 217
SduI GDGCHC 1 cut(s) 165
SetI ASST 9 cut(s) 50, 62, 130, 165, 176, 184, 217, 234, 239
SfuI TTCGAA 1 cut(s) 177
SmlI CTYRAG 1 cut(s) 65
SmoI CTYRAG 1 cut(s) 65
Sse9I AATT 2 cut(s) 189, 255
SspMI CTAG 1 cut(s) 45
SstI GAGCTC 1 cut(s) 165
TaaI ACNGT 1 cut(s) 27
TaqI TCGA 1 cut(s) 177
TasI AATT 2 cut(s) 189, 255
TatI WGTACW 1 cut(s) 69
TseFI GTSAC 3 cut(s) 3, 27, 34
TseI GCWGC 2 cut(s) 229, 241
Tsp45I GTSAC 3 cut(s) 3, 27, 34
TspDTI ATGAA 2 cut(s) 105, 162
XmnI GAANNNNTTC 1 cut(s) 183
XspI CTAG 1 cut(s) 45
ZrmI AGTACT 1 cut(s) 71
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.