Rh3CG001300

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0000089
Physical Location & Seq
Forward (+)
174443 .. 178339
3897 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG001300.1

Sequence Viewer

Length: 549 bp
ATGCTCCCGCCACCAAAAGCTCTCGCCCTAGTCGACGGTGACCTTCATAATGTTCGACGGGGTCGGAGCCACCTAGTTGTTTCCTTCCTTCTTGCCGTCAACTCTCTCAAGGAGAACCCACCATCTGCAAATTCCATAAGGGATGACGCACTTGCAAGAGTTTTAGGACCTGAAACTCGTGGACGAGTTTGTGGGCTTGGGTTTGGTGCTACACCATCTCGAGTTTATGCTACTATTCAAGGCAGTGCAAAGAGGCTTGCTCAGGTTGAAGCAAAGCTTGAAGCTCTTTTAAAGGCCACTCAGGAGGGACCTTCTCAACATAACAGAAACTTAGAGAAAATGATAAATGCACATGCAACCACTTCTCAGTCACAACAATCAAGTCAACCAATCAATGCTCCAAGCAATGATCTTGAAAATAGAAGATGTGCACTTTTGAATTGGAACAATTATGAAGAAGATGAAGTGGCCTTGATTCCTGGATTCCAATGTAATTTGCTGCGAGTAGAAATAATGAACTTGATAATATGGCTCACAGCCTTTCATTGA
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
Transposase_23

Protein Analysis

182

Amino Acids

20.01

Weight (kDa)

8.54

Isoelectric Point (pI)

50.92

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: OG0000089)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42700
fragaria_vesca FvH4_1g29233 FvH4_1g29373 FvH4_2g07142 FvH4_2g08144 FvH4_3g21852 FvH4_3g29221 FvH4_3g32731 FvH4_3g45091 FvH4_4g01311 FvH4_4g03220 FvH4_4g06631 FvH4_4g10040 FvH4_4g10363 FvH4_4g12371 FvH4_4g15323 FvH4_4g15580 FvH4_4g16173 FvH4_5g18843 FvH4_5g23172 FvH4_5g27660 FvH4_5g37213 FvH4_6g17382 FvH4_6g20172 FvH4_6g20173 FvH4_6g21082 FvH4_6g35541
malus_domestica MD02G1251500.v1.1 MD02G1252300.v1.1
pyrus_communis pycom01g02580 pycom01g08340 pycom01g08610 pycom11g01520 pycom12g04790
rosa_chinensis RchiOBHm_Chr0c16g0499821 RchiOBHm_Chr0c16g0499871 RchiOBHm_Chr0c28g0501051 RchiOBHm_Chr1g0313071 RchiOBHm_Chr1g0315701 RchiOBHm_Chr1g0318841 RchiOBHm_Chr1g0326261 RchiOBHm_Chr1g0357501 RchiOBHm_Chr2g0133581 RchiOBHm_Chr2g0134701 RchiOBHm_Chr2g0152521 RchiOBHm_Chr3g0455961 RchiOBHm_Chr3g0458231 RchiOBHm_Chr3g0460621 RchiOBHm_Chr3g0492791 RchiOBHm_Chr3g0492801 RchiOBHm_Chr3g0496631 RchiOBHm_Chr3g0496641 RchiOBHm_Chr4g0386541 RchiOBHm_Chr4g0415851 RchiOBHm_Chr4g0420561 RchiOBHm_Chr4g0422721 RchiOBHm_Chr4g0433611 RchiOBHm_Chr4g0444771 RchiOBHm_Chr5g0033771 RchiOBHm_Chr5g0059371 RchiOBHm_Chr5g0060161 RchiOBHm_Chr5g0064791 RchiOBHm_Chr5g0064801 RchiOBHm_Chr6g0269851 RchiOBHm_Chr6g0280321 RchiOBHm_Chr6g0287111 RchiOBHm_Chr7g0177401 RchiOBHm_Chr7g0200581 RchiOBHm_Chr7g0200591 RchiOBHm_Chr7g0231331
rosa_laevigata RLG00000001052 RLG00000001162 RLG00000002271 RLG00000002679 RLG00000007743 RLG00000009828 RLG00000009891 RLG00000009895 RLG00000009898 RLG00000017129 RLG00000018019 RLG00000018832 RLG00000018849 RLG00000019409 RLG00000019469 RLG00000019633 RLG00000019682 RLG00000020304 RLG00000024132 RLG00000027333 RLG00000028566 RLG00000031685 RLG00000031699 RLG00000034060 RLG00000034663 RLG00000035858 RLG00000036314
rosa_multiflora Rmu_sc0000178.1_g000001 Rmu_sc0000847.1_g000010 Rmu_sc0000861.1_g000033 Rmu_sc0001043.1_g000008 Rmu_sc0001499.1_g000050 Rmu_sc0001572.1_g000045 Rmu_sc0001768.1_g000043 Rmu_sc0001824.1_g000038 Rmu_sc0002037.1_g000022 Rmu_sc0002042.1_g000011 Rmu_sc0002322.1_g000001 Rmu_sc0002401.1_g000002 Rmu_sc0002438.1_g000018 Rmu_sc0002648.1_g000010 Rmu_sc0002784.1_g000047 Rmu_sc0003776.1_g000004 Rmu_sc0003780.1_g000005 Rmu_sc0004140.1_g000039 Rmu_sc0004596.1_g000033 Rmu_sc0004866.1_g000040 Rmu_sc0004964.1_g000011 Rmu_sc0005065.1_g000039 Rmu_sc0005137.1_g000032 Rmu_sc0005294.1_g000031 Rmu_sc0005426.1_g000005 Rmu_sc0005789.1_g000017 Rmu_sc0007891.1_g000008 Rmu_sc0008554.1_g000002 Rmu_sc0011363.1_g000002 Rmu_sc0020081.1_g000001 Rmu_ssc0000079.1_g000015
rosa_roxburghii Rroxscaffold_1G00010060 Rroxscaffold_1G00013840 Rroxscaffold_1G00031540 Rroxscaffold_1G00039640 Rroxscaffold_1G00048530 Rroxscaffold_2G00093720 Rroxscaffold_2G00093730 Rroxscaffold_2G00109830 Rroxscaffold_2G00109890 Rroxscaffold_2G00149920 Rroxscaffold_3G00274720 Rroxscaffold_4G00300310 Rroxscaffold_5G00347510 Rroxscaffold_5G00360920 Rroxscaffold_5G00362090 Rroxscaffold_5G00368170 Rroxscaffold_6G00391580 Rroxscaffold_7G00181720 Rroxscaffold_7G00209870
rosa_rugosa Rorug01G0071800 Rorug01G0071900 Rorug01G0072000 Rorug01G0072100 Rorug01G0084700 Rorug01G0104500 Rorug01G0104500 Rorug01G0134900.1 Rorug01G0135000.1 Rorug01G0183500 Rorug01G0256500 Rorug01G0312300 Rorug01G0312400 Rorug01G0351500 Rorug01G0384100 Rorug02G0039300 Rorug02G0319100 Rorug02G0319200 Rorug02G0319300 Rorug02G0461700 Rorug02G0531700 Rorug02G0617600 Rorug03G0155300 Rorug03G0190400 Rorug03G0248900 Rorug03G0249000 Rorug05G0141900 Rorug05G0325500 Rorug05G0325600 Rorug05G0369600 Rorug05G0490000 Rorug05G0490100.1 Rorug06G0009300 Rorug06G0035500 Rorug06G0082200 Rorug06G0133600 Rorug06G0133700 Rorug06G0149500 Rorug06G0149600 Rorug06G0149700 Rorug06G0351300 Rorug06G0443300 Rorug06G0443400 Rorug06G0443500 Rorug06G0443500 Rorug06G0443500 Rorug06G0480000 Rorug07G0260700 Rorug07G0260800 Rorug07G0289600 Rorug07G0289700 Rorug07G0319200 Rorug07G0319300
rosa_samantha Rh1AG098300 Rh1BG003900 Rh1BG262700 Rh1CG054000 Rh1CG054100 Rh1CG054200 Rh1CG232800 Rh1DG058300 Rh1DG058400 Rh1DG058500 Rh1DG085300 Rh1DG137700 Rh2AG234800 Rh2BG248300 Rh2CG045400 Rh2CG239300 Rh2CG239400 Rh2CG326600 Rh2CG349000 Rh2CG355400 Rh2CG402000 Rh2DG001000 Rh2DG242300 Rh3AG001600 Rh3AG306500 Rh3BG373600 Rh3CG001300 Rh3CG365600 Rh4AG013600 Rh4AG178000 Rh4AG198400 Rh4AG198600 Rh4AG416100 Rh4AG416300 Rh4BG029700 Rh4BG138600 Rh4BG150700 Rh4BG196400 Rh4BG427400 Rh4BG427600 Rh4CG442400 Rh4CG442500 Rh4DG171400 Rh4DG171500 Rh4DG171600 Rh4DG196200 Rh4DG423300 Rh4DG423400 Rh5AG490200 Rh5CG422300 Rh5CG428400 Rh5CG513400 Rh5CG519500 Rh5CG579300 Rh6AG225400 Rh6BG053200 Rh6BG195500 Rh6BG245600 Rh6DG161700 Rh6DG238400 Rh7AG348200 Rh7AG396700 Rh7AG396800 Rh7AG410600 Rh7BG445300 Rh7CG255900 Rh7CG365800 Rh7CG415100 Rh7CG415200 Rh7DG191000 Rh7DG191100 Rh7DG362700
rosa_wichuraiana Rw1G003060 Rw2G017950 Rw2G019900 Rw2G038280 Rw2G048340 Rw3G026970 Rw4G006460 Rw4G009350 Rw4G016820 Rw5G034510 Rw5G049530 Rw6G004160 Rw7G032270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 33
AciI CCGC 1 cut(s) 8
AcsI RAATTY 1 cut(s) 130
AgsI TTSAA 5 cut(s) 239, 269, 281, 416, 439
AjnI CCWGG 1 cut(s) 478
AluBI AGCT 3 cut(s) 20, 277, 284
AluI AGCT 3 cut(s) 20, 277, 284
Alw21I GWGCWC 1 cut(s) 433
Alw44I GTGCAC 1 cut(s) 429
Ama87I CYCGRG 1 cut(s) 219
AoxI GGCC 2 cut(s) 294, 468
ApaLI GTGCAC 1 cut(s) 429
ApeKI GCWGC 1 cut(s) 499
ApoI RAATTY 1 cut(s) 130
AspS9I GGNCC 2 cut(s) 167, 308
AsuHPI GGTGA 1 cut(s) 50
AvaI CYCGRG 1 cut(s) 219
AvaII GGWCC 2 cut(s) 167, 308
BaeGI GKGCMC 1 cut(s) 433
BauI CACGAG 1 cut(s) 177
Bbv12I GWGCWC 1 cut(s) 433
BbvI GCAGC 1 cut(s) 486
BccI CCATC 2 cut(s) 130, 223
BceAI ACGGC 1 cut(s) 80
BciT130I CCWGG 1 cut(s) 480
BfaI CTAG 2 cut(s) 29, 74
BisI GCNGC 1 cut(s) 500
BlsI GCNGC 1 cut(s) 501
Bme1390I CCNGG 1 cut(s) 480
Bme18I GGWCC 2 cut(s) 167, 308
BmeT110I CYCGRG 1 cut(s) 219
BmgT120I GGNCC 2 cut(s) 167, 308
BmiI GGNNCC 2 cut(s) 68, 309
BmrFI CCNGG 1 cut(s) 480
BplI GAGNNNNNCTC 2 cut(s) 244, 276
Bpu10I CCTNAGC 1 cut(s) 261
BpuEI CTTGAG 1 cut(s) 92
Bse3DI GCAATG 1 cut(s) 412
BseBI CCWGG 1 cut(s) 480
BseGI GGATG 1 cut(s) 148
BseMI GCAATG 1 cut(s) 412
BseMII CTCAG 3 cut(s) 275, 314, 380
BseSI GKGCMC 1 cut(s) 433
BseXI GCAGC 1 cut(s) 486
BshFI GGCC 2 cut(s) 296, 470
BsiHKAI GWGCWC 1 cut(s) 433
BsiHKCI CYCGRG 1 cut(s) 219
BslFI GGGAC 1 cut(s) 321
BsmFI GGGAC 1 cut(s) 321
BsnI GGCC 2 cut(s) 296, 470
BsoBI CYCGRG 1 cut(s) 219
Bsp1286I GDGCHC 1 cut(s) 433
Bsp143I GATC 1 cut(s) 409
BspACI CCGC 1 cut(s) 8
BspANI GGCC 2 cut(s) 296, 470
BspCNI CTCAG 3 cut(s) 274, 313, 379
BspLI GGNNCC 2 cut(s) 68, 309
BsrDI GCAATG 1 cut(s) 412
BssMI GATC 1 cut(s) 409
BssSI CACGAG 1 cut(s) 177
Bst2BI CACGAG 1 cut(s) 177
Bst2UI CCWGG 1 cut(s) 480
Bst4CI ACNGT 1 cut(s) 38
BstC8I GCNNGC 1 cut(s) 258
BstDEI CTNAG 4 cut(s) 261, 300, 331, 366
BstEII GGTNACC 1 cut(s) 38
BstF5I GGATG 1 cut(s) 148
BstKTI GATC 1 cut(s) 412
BstMBI GATC 1 cut(s) 409
BstNI CCWGG 1 cut(s) 480
BstNSI RCATGY 1 cut(s) 356
BstPI GGTNACC 1 cut(s) 38
BstSCI CCNGG 1 cut(s) 478
BstSLI GKGCMC 1 cut(s) 433
BstV1I GCAGC 1 cut(s) 486
BsuRI GGCC 2 cut(s) 296, 470
BtsCI GGATG 1 cut(s) 148
BtsI GCAGTG 1 cut(s) 250
BtsIMutI CAGTG 1 cut(s) 250
Cac8I GCNNGC 1 cut(s) 258
Cfr13I GGNCC 2 cut(s) 167, 308
CseI GACGC 1 cut(s) 155
CviAII CATG 1 cut(s) 353
DdeI CTNAG 4 cut(s) 261, 300, 331, 366
DpnI GATC 1 cut(s) 411
DpnII GATC 1 cut(s) 409
DraI TTTAAA 1 cut(s) 291
Eco47I GGWCC 2 cut(s) 167, 308
Eco88I CYCGRG 1 cut(s) 219
Eco91I GGTNACC 1 cut(s) 38
EcoO109I RGGNCCY 2 cut(s) 167, 308
EcoO65I GGTNACC 1 cut(s) 38
EcoRII CCWGG 1 cut(s) 478
FaeI CATG 1 cut(s) 356
FaiI YATR 7 cut(s) 48, 137, 228, 321, 354, 453, 529
FalI AAGNNNNNCTT 2 cut(s) 261, 293
FaqI GGGAC 1 cut(s) 321
FatI CATG 1 cut(s) 352
FauI CCCGC 1 cut(s) 15
FblI GTMKAC 1 cut(s) 33
Fnu4HI GCNGC 1 cut(s) 500
FokI GGATG 1 cut(s) 155
Fsp4HI GCNGC 1 cut(s) 500
FspBI CTAG 2 cut(s) 29, 74
GluI GCNGC 1 cut(s) 500
HaeIII GGCC 2 cut(s) 296, 470
HgaI GACGC 1 cut(s) 155
Hin1II CATG 1 cut(s) 356
HincII GTYRAC 3 cut(s) 34, 100, 386
HindII GTYRAC 3 cut(s) 34, 100, 386
HindIII AAGCTT 1 cut(s) 275
HinfI GANTC 2 cut(s) 475, 483
HphI GGTGA 1 cut(s) 50
Hpy166II GTNNAC 5 cut(s) 34, 100, 182, 386, 431
Hpy188I TCNGA 1 cut(s) 66
Hpy188III TCNNGA 3 cut(s) 219, 302, 413
Hpy8I GTNNAC 5 cut(s) 34, 100, 182, 386, 431
Hpy99I CGWCG 2 cut(s) 38, 60
HpyAV CCTTC 4 cut(s) 53, 94, 98, 321
HpyCH4III ACNGT 1 cut(s) 38
HpyCH4V TGCA 6 cut(s) 128, 155, 248, 350, 356, 431
HpyF3I CTNAG 4 cut(s) 261, 300, 331, 366
Hsp92II CATG 1 cut(s) 356
Kzo9I GATC 1 cut(s) 409
LmnI GCTCC 3 cut(s) 9, 66, 403
LpnPI CCDG 5 cut(s) 183, 248, 287, 465, 492
Lsp1109I GCAGC 1 cut(s) 486
MaeI CTAG 2 cut(s) 29, 74
MaeIII GTNAC 2 cut(s) 38, 369
MalI GATC 1 cut(s) 411
MboI GATC 1 cut(s) 409
MboII GAAGA 3 cut(s) 435, 467, 470
MhlI GDGCHC 1 cut(s) 433
MluCI AATT 4 cut(s) 130, 439, 448, 493
MmeI TCCRAC 1 cut(s) 44
MnlI CCTC 2 cut(s) 246, 298
MseI TTAA 1 cut(s) 290
MspR9I CCNGG 1 cut(s) 480
MvaI CCWGG 1 cut(s) 480
NdeII GATC 1 cut(s) 409
NlaIII CATG 1 cut(s) 356
NlaIV GGNNCC 2 cut(s) 68, 309
NmuCI GTSAC 2 cut(s) 38, 369
NspI RCATGY 1 cut(s) 356
PaeR7I CTCGAG 1 cut(s) 219
PcsI WCGNNNNNNNCGW 1 cut(s) 30
PfeI GAWTC 2 cut(s) 475, 483
PflFI GACNNNGTC 1 cut(s) 60
PfoI TCCNGGA 1 cut(s) 478
PkrI GCNGC 1 cut(s) 501
PpuMI RGGWCCY 2 cut(s) 167, 308
Psp5II RGGWCCY 2 cut(s) 167, 308
Psp6I CCWGG 1 cut(s) 478
PspEI GGTNACC 1 cut(s) 38
PspGI CCWGG 1 cut(s) 478
PspN4I GGNNCC 2 cut(s) 68, 309
PspPI GGNCC 2 cut(s) 167, 308
PspPPI RGGWCCY 2 cut(s) 167, 308
PsyI GACNNNGTC 1 cut(s) 60
SalI GTCGAC 1 cut(s) 32
SaqAI TTAA 1 cut(s) 290
SatI GCNGC 1 cut(s) 500
Sau3AI GATC 1 cut(s) 409
Sau96I GGNCC 2 cut(s) 167, 308
ScrFI CCNGG 1 cut(s) 480
SduI GDGCHC 1 cut(s) 433
SetI ASST 8 cut(s) 22, 45, 75, 172, 267, 279, 286, 313
Sfr274I CTCGAG 1 cut(s) 219
SinI GGWCC 2 cut(s) 167, 308
SlaI CTCGAG 1 cut(s) 219
SmlI CTYRAG 2 cut(s) 107, 219
SmoI CTYRAG 2 cut(s) 107, 219
Sse9I AATT 4 cut(s) 130, 439, 448, 493
SsiI CCGC 1 cut(s) 8
SspMI CTAG 2 cut(s) 29, 74
StyD4I CCNGG 1 cut(s) 478
TaaI ACNGT 1 cut(s) 38
TaqI TCGA 3 cut(s) 33, 55, 220
TasI AATT 4 cut(s) 130, 439, 448, 493
TfiI GAWTC 2 cut(s) 475, 483
Tru1I TTAA 1 cut(s) 290
Tru9I TTAA 1 cut(s) 290
TscAI CASTG 1 cut(s) 250
TseFI GTSAC 2 cut(s) 38, 369
TseI GCWGC 1 cut(s) 499
Tsp45I GTSAC 2 cut(s) 38, 369
TspDTI ATGAA 5 cut(s) 35, 468, 477, 530, 533
TspRI CASTG 1 cut(s) 250
Tth111I GACNNNGTC 1 cut(s) 60
VneI GTGCAC 1 cut(s) 429
VpaK11BI GGWCC 2 cut(s) 167, 308
XapI RAATTY 1 cut(s) 130
XceI RCATGY 1 cut(s) 356
XhoI CTCGAG 1 cut(s) 219
XmiI GTMKAC 1 cut(s) 33
XspI CTAG 2 cut(s) 29, 74
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.