Rroxscaffold_3G00239670

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000109
Physical Location & Seq
Reverse (-)
30127121 .. 30147145
20025 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00239670.1

Sequence Viewer

Length: 558 bp
ATGGTCCCTCCCTATCTTGCTTTCCATCACTCTCCACCCTACGGGGGTCTACATGTTTACTTCGAACTACCCGGTGATAGTCGGAGGGACGAGTTAGGTGCCTCTCGGTGTTGGATCCTCATCTTATCGGCGTGTTCCTTTGGAAGGATTGGCGGCTCGCTACTCGCTTCGCGGGGTTGTGTTCCACTTGTAGCGGTGTCAACCGACATGGAGGCTTCTTGGCTGGAGCTTGTTCTTGGAGTGGACCTTATGAAATTGATTCGAGTTCTGAATCGTGAATTGAAGGGATCTTTTGGGTTACAGCAATTTTCTGTCCTGATTTTGGGGAAGCTTATCCTTTTGTCAAGGAAGTCTGAAAACATCTACAATGGCCTGAAATCAAGCCCAACAAGAAAGCCTCAATTTGCTACAGTGAAGAAAAATTCAAACCTTCATTTCTTCCTCCACGCTCCGATTTGCTGCAAAAGGCTTGGAGGGCTTCAAGTGCATACCAAGGCACTTCTACTAGTACAAGTTTTGTCACCGGAGGTGGCCAAATTTGAAAGAAATCGACGTTGA
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

185

Amino Acids

20.58

Weight (kDa)

9.88

Isoelectric Point (pI)

48.9

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: OG0000109)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g11460 FvH4_1g20081 FvH4_1g21331 FvH4_1g22022 FvH4_1g27932 FvH4_2g04010 FvH4_2g07601 FvH4_2g09181 FvH4_2g18601 FvH4_2g24951 FvH4_2g27371 FvH4_3g15420 FvH4_3g26790 FvH4_3g26791 FvH4_3g34441 FvH4_3g34930 FvH4_3g45133 FvH4_4g02561 FvH4_4g05731 FvH4_4g05732 FvH4_4g06570 FvH4_4g09962 FvH4_4g13551 FvH4_4g13621 FvH4_4g14830 FvH4_4g15081 FvH4_4g26661 FvH4_5g05871 FvH4_5g08822 FvH4_5g12461 FvH4_5g24922 FvH4_5g30051 FvH4_5g30200 FvH4_5g30551 FvH4_5g32991 FvH4_5g36132 FvH4_5g37291 FvH4_6g07931 FvH4_6g08641 FvH4_6g12800 FvH4_6g13840 FvH4_6g13900 FvH4_6g16432 FvH4_6g16701 FvH4_6g28831 FvH4_6g31171 FvH4_6g41261 FvH4_7g00030 FvH4_7g01201 FvH4_7g08120 FvH4_7g10071 FvH4_7g18780
rosa_chinensis RchiOBHm_Chr2g0119561 RchiOBHm_Chr3g0458511 RchiOBHm_Chr3g0477731 RchiOBHm_Chr3g0479111 RchiOBHm_Chr3g0497091 RchiOBHm_Chr5g0072451 RchiOBHm_Chr6g0284681 RchiOBHm_Chr6g0311691 RchiOBHm_Chr7g0182191
rosa_laevigata RLG00000000983 RLG00000001598 RLG00000004616 RLG00000004931 RLG00000006806 RLG00000008371 RLG00000009544 RLG00000009718 RLG00000013465 RLG00000013533 RLG00000014631 RLG00000014987 RLG00000015588 RLG00000016226 RLG00000018171 RLG00000018433 RLG00000018649 RLG00000018710 RLG00000018870 RLG00000019205 RLG00000020638 RLG00000023424 RLG00000024707 RLG00000025967 RLG00000030020 RLG00000030596 RLG00000030996 RLG00000033451 RLG00000033757 RLG00000033758 RLG00000033808 RLG00000033812 RLG00000034857 RLG00000035240 RLG00000035691 RLG00000036232 RLG00000036301 RLG00000036412
rosa_multiflora Rmu_co8113544.1_g000001 Rmu_co8372331.1_g000001 Rmu_sc0000298.1_g000003 Rmu_sc0000552.1_g000026 Rmu_sc0000814.1_g000037 Rmu_sc0001211.1_g000126 Rmu_sc0001311.1_g000026 Rmu_sc0001354.1_g000009 Rmu_sc0002119.1_g000029 Rmu_sc0002357.1_g000020 Rmu_sc0002573.1_g000014 Rmu_sc0002586.1_g000022 Rmu_sc0003517.1_g000004 Rmu_sc0003558.1_g000001 Rmu_sc0004084.1_g000044 Rmu_sc0004143.1_g000011 Rmu_sc0004514.1_g000002 Rmu_sc0005370.1_g000004 Rmu_sc0005392.1_g000015 Rmu_sc0005664.1_g000009 Rmu_sc0006235.1_g000009 Rmu_sc0006423.1_g000001 Rmu_sc0006838.1_g000018 Rmu_sc0006847.1_g000005 Rmu_sc0006959.1_g000019 Rmu_sc0007111.1_g000002 Rmu_sc0009125.1_g000001 Rmu_sc0009546.1_g000015 Rmu_sc0009670.1_g000006 Rmu_sc0011618.1_g000004 Rmu_sc0012306.1_g000002 Rmu_sc0012306.1_g000003 Rmu_sc0012355.1_g000001 Rmu_sc0012355.1_g000002 Rmu_sc0013116.1_g000002 Rmu_sc0016872.1_g000001 Rmu_sc0017043.1_g000005 Rmu_sc0017081.1_g000003 Rmu_sc0018075.1_g000002 Rmu_sc0020578.1_g000002 Rmu_sc0034515.1_g000001 Rmu_sc0040072.1_g000003 Rmu_ssc0000309.1_g000056 Rmu_ssc0000330.1_g000048
rosa_roxburghii Rroxscaffold_1G00007410 Rroxscaffold_1G00027350 Rroxscaffold_1G00043810 Rroxscaffold_2G00099880 Rroxscaffold_2G00112650 Rroxscaffold_2G00122020 Rroxscaffold_3G00223350 Rroxscaffold_3G00239670 Rroxscaffold_5G00333740 Rroxscaffold_5G00335340 Rroxscaffold_5G00341030 Rroxscaffold_5G00342730 Rroxscaffold_6G00426030 Rroxscaffold_7G00162470 Rroxscaffold_7G00196110 Rroxscaffold_7G00202440 Rroxscaffold_7G00202450 Rroxscaffold_7G00215740
rosa_rugosa Rorug01G0176600 Rorug01G0276600 Rorug02G0236500 Rorug02G0277000 Rorug02G0363300 Rorug02G0375900 Rorug02G0473700 Rorug02G0546200 Rorug02G0601000 Rorug03G0158400 Rorug03G0289500 Rorug04G0026600 Rorug04G0090000 Rorug04G0105500 Rorug04G0263100 Rorug04G0394500 Rorug05G0122200 Rorug05G0152200 Rorug05G0541800 Rorug05G0551100 Rorug05G0554400 Rorug06G0244900 Rorug06G0401400
rosa_samantha Rh1CG158000 Rh1CG280800 Rh1CG326900 Rh2BG051500 Rh2BG101500 Rh2BG438200 Rh2BG509100 Rh2BG531600 Rh2BG531800 Rh2BG629800 Rh2BG629900 Rh2CG565300 Rh2DG448000 Rh2DG540600 Rh2DG540700 Rh2DG641700 Rh2DG641800 Rh3AG222200 Rh3BG034200 Rh3BG254700 Rh3DG286800 Rh3DG322600 Rh4AG009200 Rh4AG050400 Rh4AG223100 Rh4BG072500 Rh4BG106000 Rh4CG010200 Rh4CG053700 Rh4CG236100 Rh4CG236200 Rh4CG236300 Rh4DG104800 Rh5AG474800 Rh5BG214500 Rh5BG360000 Rh5BG403700 Rh5BG494900 Rh5DG255300 Rh6AG205400 Rh6BG227300 Rh6CG280700 Rh6DG273400 Rh7AG187300 Rh7AG220800 Rh7AG355700 Rh7AG462000 Rh7AG462200 Rh7AG465900 Rh7CG198300 Rh7CG222100 Rh7CG373000 Rh7CG479300 Rh7DG233800
rosa_wichuraiana Rw0G018350 Rw1G026500 Rw2G024750 Rw2G051200 Rw5G001570 Rw5G036850 Rw6G016070 Rw6G042710

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 98
AccI GTMKAC 1 cut(s) 49
AccII CGCG 1 cut(s) 172
AciI CCGC 3 cut(s) 153, 172, 194
AclWI GGATC 3 cut(s) 109, 122, 295
AcoI YGGCCR 1 cut(s) 531
AcsI RAATTY 2 cut(s) 421, 536
AfaI GTAC 1 cut(s) 510
AfiI CCNNNNNNNGG 4 cut(s) 41, 44, 144, 322
AflIII ACRYGT 1 cut(s) 52
AgsI TTSAA 4 cut(s) 283, 426, 482, 542
AhlI ACTAGT 1 cut(s) 505
AluBI AGCT 2 cut(s) 229, 331
AluI AGCT 2 cut(s) 229, 331
AlwI GGATC 3 cut(s) 109, 122, 295
AoxI GGCC 2 cut(s) 370, 531
ApeKI GCWGC 1 cut(s) 459
ApoI RAATTY 2 cut(s) 421, 536
AspS9I GGNCC 2 cut(s) 4, 244
AsuC2I CCSGG 1 cut(s) 72
AsuHPI GGTGA 2 cut(s) 86, 513
AsuII TTCGAA 1 cut(s) 63
AvaII GGWCC 2 cut(s) 4, 244
BalI TGGCCA 1 cut(s) 533
BamHI GGATCC 1 cut(s) 114
BanI GGYRCC 1 cut(s) 98
BbvI GCAGC 1 cut(s) 446
BccI CCATC 1 cut(s) 33
BcgI CGANNNNNNTGC 2 cut(s) 80, 114
BcnI CCSGG 1 cut(s) 72
BcuI ACTAGT 1 cut(s) 505
BfaI CTAG 1 cut(s) 506
BfmI CTRYAG 1 cut(s) 408
BisI GCNGC 2 cut(s) 154, 460
BlsI GCNGC 2 cut(s) 155, 461
Bme1390I CCNGG 1 cut(s) 72
Bme18I GGWCC 2 cut(s) 4, 244
BmgT120I GGNCC 2 cut(s) 4, 244
BmiI GGNNCC 3 cut(s) 6, 100, 116
BmrFI CCNGG 1 cut(s) 72
BpmI CTGGAG 1 cut(s) 245
Bpu14I TTCGAA 1 cut(s) 63
BpuMI CCSGG 1 cut(s) 72
BsaBI GATNNNNATC 1 cut(s) 119
BsaJI CCNNGG 1 cut(s) 492
BsaWI WCCGGW 1 cut(s) 523
Bsc4I CCNNNNNNNGG 4 cut(s) 41, 44, 144, 322
Bse8I GATNNNNATC 1 cut(s) 119
BseDI CCNNGG 1 cut(s) 492
BseJI GATNNNNATC 1 cut(s) 119
BseLI CCNNNNNNNGG 4 cut(s) 41, 44, 144, 322
BseXI GCAGC 1 cut(s) 446
Bsh1236I CGCG 1 cut(s) 172
BshFI GGCC 2 cut(s) 372, 533
BshNI GGYRCC 1 cut(s) 98
BsiSI CCGG 2 cut(s) 72, 524
BslFI GGGAC 1 cut(s) 101
BslI CCNNNNNNNGG 4 cut(s) 41, 44, 144, 322
BsmFI GGGAC 1 cut(s) 101
BsnI GGCC 2 cut(s) 372, 533
Bsp119I TTCGAA 1 cut(s) 63
Bsp143I GATC 2 cut(s) 114, 287
BspACI CCGC 3 cut(s) 153, 172, 194
BspANI GGCC 2 cut(s) 372, 533
BspFNI CGCG 1 cut(s) 172
BspLI GGNNCC 3 cut(s) 6, 100, 116
BspPI GGATC 3 cut(s) 109, 122, 295
BspT104I TTCGAA 1 cut(s) 63
BspT107I GGYRCC 1 cut(s) 98
BssECI CCNNGG 1 cut(s) 492
BssMI GATC 2 cut(s) 114, 287
BssT1I CCWWGG 1 cut(s) 492
Bst4CI ACNGT 1 cut(s) 412
BstBI TTCGAA 1 cut(s) 63
BstC8I GCNNGC 1 cut(s) 158
BstENI CCTNNNNNAGG 1 cut(s) 142
BstFNI CGCG 1 cut(s) 172
BstKTI GATC 2 cut(s) 117, 290
BstMBI GATC 2 cut(s) 114, 287
BstMWI GCNNNNNNNGC 2 cut(s) 475, 484
BstNSI RCATGY 1 cut(s) 56
BstSCI CCNGG 1 cut(s) 70
BstSFI CTRYAG 1 cut(s) 408
BstUI CGCG 1 cut(s) 172
BstV1I GCAGC 1 cut(s) 446
BstX2I RGATCY 2 cut(s) 114, 287
BstYI RGATCY 2 cut(s) 114, 287
BsuRI GGCC 2 cut(s) 372, 533
BtsIMutI CAGTG 1 cut(s) 417
Cac8I GCNNGC 1 cut(s) 158
Cfr13I GGNCC 2 cut(s) 4, 244
Csp6I GTAC 1 cut(s) 509
CviAII CATG 2 cut(s) 53, 208
CviQI GTAC 1 cut(s) 509
DpnI GATC 2 cut(s) 116, 289
DpnII GATC 2 cut(s) 114, 287
EaeI YGGCCR 1 cut(s) 531
Eco130I CCWWGG 1 cut(s) 492
Eco47I GGWCC 2 cut(s) 4, 244
EcoNI CCTNNNNNAGG 1 cut(s) 142
EcoT14I CCWWGG 1 cut(s) 492
ErhI CCWWGG 1 cut(s) 492
FaeI CATG 2 cut(s) 56, 211
FaiI YATR 4 cut(s) 54, 209, 251, 489
FaqI GGGAC 1 cut(s) 101
FatI CATG 2 cut(s) 52, 207
FauI CCCGC 1 cut(s) 165
FblI GTMKAC 1 cut(s) 49
Fnu4HI GCNGC 2 cut(s) 154, 460
Fsp4HI GCNGC 2 cut(s) 154, 460
FspBI CTAG 1 cut(s) 506
GluI GCNGC 2 cut(s) 154, 460
GsuI CTGGAG 1 cut(s) 245
HaeIII GGCC 2 cut(s) 372, 533
HapII CCGG 2 cut(s) 72, 524
Hin1II CATG 2 cut(s) 56, 211
HincII GTYRAC 1 cut(s) 201
HindII GTYRAC 1 cut(s) 201
HindIII AAGCTT 1 cut(s) 329
HinfI GANTC 2 cut(s) 259, 271
HpaII CCGG 2 cut(s) 72, 524
HphI GGTGA 2 cut(s) 86, 513
Hpy166II GTNNAC 4 cut(s) 50, 58, 201, 244
Hpy188I TCNGA 4 cut(s) 84, 270, 355, 453
Hpy188III TCNNGA 2 cut(s) 275, 316
Hpy8I GTNNAC 4 cut(s) 50, 58, 201, 244
Hpy99I CGWCG 1 cut(s) 555
HpyAV CCTTC 3 cut(s) 138, 277, 440
HpyCH4III ACNGT 1 cut(s) 412
HpyCH4IV ACGT 1 cut(s) 553
HpyCH4V TGCA 2 cut(s) 462, 487
HpyF10VI GCNNNNNNNGC 2 cut(s) 475, 484
HpySE526I ACGT 1 cut(s) 553
Hsp92II CATG 2 cut(s) 56, 211
Kzo9I GATC 2 cut(s) 114, 287
LmnI GCTCC 2 cut(s) 226, 454
LpnPI CCDG 5 cut(s) 85, 209, 329, 386, 537
Lsp1109I GCAGC 1 cut(s) 446
MaeI CTAG 1 cut(s) 506
MaeII ACGT 1 cut(s) 553
MaeIII GTNAC 2 cut(s) 297, 519
MalI GATC 2 cut(s) 116, 289
MboI GATC 2 cut(s) 114, 287
MboII GAAGA 2 cut(s) 427, 430
MflI RGATCY 2 cut(s) 114, 287
MlsI TGGCCA 1 cut(s) 533
MluCI AATT 6 cut(s) 254, 278, 305, 401, 421, 536
MluNI TGGCCA 1 cut(s) 533
MmeI TCCRAC 2 cut(s) 62, 92
MnlI CCTC 9 cut(s) 18, 78, 112, 128, 205, 408, 452, 467, 520
Mox20I TGGCCA 1 cut(s) 533
MscI TGGCCA 1 cut(s) 533
Msp20I TGGCCA 1 cut(s) 533
MspI CCGG 2 cut(s) 72, 524
MspR9I CCNGG 1 cut(s) 72
MvnI CGCG 1 cut(s) 172
MwoI GCNNNNNNNGC 2 cut(s) 475, 484
NciI CCSGG 1 cut(s) 72
NdeII GATC 2 cut(s) 114, 287
NlaIII CATG 2 cut(s) 56, 211
NlaIV GGNNCC 3 cut(s) 6, 100, 116
NmuCI GTSAC 1 cut(s) 519
NspI RCATGY 1 cut(s) 56
NspV TTCGAA 1 cut(s) 63
PciI ACATGT 1 cut(s) 52
PfeI GAWTC 2 cut(s) 259, 271
PkrI GCNGC 2 cut(s) 155, 461
PscI ACATGT 1 cut(s) 52
PspN4I GGNNCC 3 cut(s) 6, 100, 116
PspPI GGNCC 2 cut(s) 4, 244
PsuI RGATCY 2 cut(s) 114, 287
RsaI GTAC 1 cut(s) 510
RsaNI GTAC 1 cut(s) 509
SatI GCNGC 2 cut(s) 154, 460
Sau3AI GATC 2 cut(s) 114, 287
Sau96I GGNCC 2 cut(s) 4, 244
ScrFI CCNGG 1 cut(s) 72
SetI ASST 7 cut(s) 100, 231, 249, 333, 432, 531, 556
SfcI CTRYAG 1 cut(s) 408
SfuI TTCGAA 1 cut(s) 63
SinI GGWCC 2 cut(s) 4, 244
SpeI ACTAGT 1 cut(s) 505
Sse9I AATT 6 cut(s) 254, 278, 305, 401, 421, 536
SsiI CCGC 3 cut(s) 153, 172, 194
SspMI CTAG 1 cut(s) 506
StyD4I CCNGG 1 cut(s) 70
StyI CCWWGG 1 cut(s) 492
TaaI ACNGT 1 cut(s) 412
TaiI ACGT 1 cut(s) 556
TaqI TCGA 3 cut(s) 63, 262, 550
TasI AATT 6 cut(s) 254, 278, 305, 401, 421, 536
TatI WGTACW 1 cut(s) 508
TauI GCSGC 1 cut(s) 156
TfiI GAWTC 2 cut(s) 259, 271
TscAI CASTG 1 cut(s) 417
TseFI GTSAC 1 cut(s) 519
TseI GCWGC 1 cut(s) 459
Tsp45I GTSAC 1 cut(s) 519
TspDTI ATGAA 2 cut(s) 266, 422
TspRI CASTG 1 cut(s) 417
VpaK11BI GGWCC 2 cut(s) 4, 244
XagI CCTNNNNNAGG 1 cut(s) 142
XapI RAATTY 2 cut(s) 421, 536
XceI RCATGY 1 cut(s) 56
XmiI GTMKAC 1 cut(s) 49
XspI CTAG 1 cut(s) 506
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.