Rh6DG132300

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000268
Physical Location & Seq
Forward (+)
18786228 .. 18788021
1794 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG132300.1

Sequence Viewer

Length: 972 bp
ATGAAACCCAACGCAAAGACAAACTATGCTGTTGCAAATCCATCTGTAGTTAGAGTTGGTAGGAACAATGTAGAATATGAGTTTGGTGGGGTAAAACCTAAAATCTTGCGATGCCGTCCAAAGCTGTTTAAAGATGTCGTTTCTAGATTTTCCGATGAAAAAAAAGTTGCAGTAGAAGAAATGGGTTTTGGGCTGTTGTTGCAGCTCCAGTGTGAGCACCTGCAGCTTGGTTTGTGTGGTTGGTTGATTGATAGATTTGATCCCAGCAAGTCTTCCATTGAGGTACATGGCAAGAGATTCAATCTTGGTCCGACCGACTTTGAGAACATAATGGGGGTCAAAGATGGAGGACATGATGTTGAAATCCGTGGCTCAAAGGCTGACATACAAGAATTAAAGGATATCCACTTTGGCAACAGATATCGAATATGCAATATGAGTGAAATAGCTGAGAAGTTGAAAGAGACGAATAATGTAGATGACACCTTTAGAGTTGGGTTTGTTCTATTTGCATTGGCCACCTTTCTTTGTCCATCTAGTTCAGGTGATTTGACAGCAAAGTTTCTGCATCCACTAAGGGACATCAATGGTACAAAATTCAAAAATTGGGCGACTTTTTCATTCAGTTTTCTTGTTGAAAGCCTTGGTACATTTAAGAAGAAAAATACAACTTCTATCGGTGGCTGTGTACTATTCTTGAAGCTGTTTTACTTTGATCTCGTCGTTCATGGAAGAACGTTTGTAAATAGATCATTGACACCTATTGTTGCATGGGGGGAAAAGGAGGAAACAAAGTTAGTGGAGTGGATCGGACAAAATGGGGGGTTTAATAGTTTGGACATTGCCATTGCTTATGATCGTATAGCCTCAATCCCAATCAGTGCTGATGAAGATGAGGTGGTGGCTGTGAGGAATGATCACACAGAGGTTGCAACAGTTGAACCACAGTCACAACAAAAGAGCCTCTGCTAG
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
HMG_box

Protein Analysis

323

Amino Acids

36.22

Weight (kDa)

7.04

Isoelectric Point (pI)

29.38

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: OG0000268)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23642 FvH4_2g09911 FvH4_2g09911 FvH4_2g09911 FvH4_3g18421 FvH4_4g05321 FvH4_6g28332 FvH4_7g31231
prunus_persica Prupe.2G063700_v2.0.a1 Prupe.5G238300_v2.0.a1 Prupe.6G153700_v2.0.a1 Prupe.7G017400_v2.0.a1 Prupe.7G070100_v2.0.a1 Prupe.7G070100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0345471 RchiOBHm_Chr1g0366901 RchiOBHm_Chr2g0162601 RchiOBHm_Chr6g0266661 RchiOBHm_Chr6g0266671
rosa_laevigata RLG00000005047 RLG00000007971 RLG00000008530 RLG00000009009 RLG00000009046 RLG00000014086 RLG00000017162 RLG00000017163 RLG00000017440 RLG00000019098 RLG00000022623 RLG00000024566 RLG00000027733 RLG00000029878 RLG00000029945 RLG00000030127 RLG00000030157 RLG00000031078 RLG00000031080 RLG00000034338 RLG00000034670
rosa_multiflora Rmu_sc0002106.1_g000007 Rmu_sc0002531.1_g000064 Rmu_sc0003433.1_g000005 Rmu_sc0004704.1_g000001 Rmu_sc0004704.1_g000002 Rmu_sc0004888.1_g000042 Rmu_sc0005599.1_g000031 Rmu_sc0006413.1_g000014 Rmu_sc0006413.1_g000018
rosa_roxburghii Rroxscaffold_1G00031940 Rroxscaffold_1G00032500 Rroxscaffold_1G00074770 Rroxscaffold_1G00074780 Rroxscaffold_1G00075150 Rroxscaffold_2G00125060 Rroxscaffold_2G00125070 Rroxscaffold_2G00125800 Rroxscaffold_2G00125820 Rroxscaffold_2G00139560 Rroxscaffold_2G00140550 Rroxscaffold_4G00314090 Rroxscaffold_6G00390050 Rroxscaffold_6G00390520 Rroxscaffold_6G00390530 Rroxscaffold_6G00428030 Rroxscaffold_7G00201570 Rroxscaffold_7G00201580 Rroxscaffold_7G00207070 Rroxscaffold_7G00207080 Rroxscaffold_7G00207240
rosa_rugosa Rorug01G0408000 Rorug01G0408100 Rorug01G0408100 Rorug01G0408200 Rorug02G0155200 Rorug02G0181500 Rorug02G0288400 Rorug03G0208600 Rorug03G0272300 Rorug06G0005500 Rorug06G0005600 Rorug06G0026300.1 Rorug06G0026400 Rorug06G0026500 Rorug06G0026600 Rorug06G0026600 Rorug06G0026600 Rorug06G0145800 Rorug07G0305200
rosa_samantha Rh1AG062100 Rh1BG131900 Rh1BG157000 Rh1CG021100 Rh1CG321600 Rh1DG188200 Rh2DG388300 Rh3AG320500 Rh3BG355400 Rh3CG352400 Rh3CG353200 Rh4AG045800 Rh4DG171700 Rh5AG196000 Rh5AG196100 Rh5CG346800 Rh6BG147600 Rh6BG147700 Rh6CG143200 Rh6CG143500 Rh6CG174600 Rh6CG391800 Rh6DG132100 Rh6DG132300 Rh6DG167100 Rh6DG167200 Rh7AG211600 Rh7BG307000 Rh7BG307300 Rh7BG398300
rosa_wichuraiana Rw0G001830 Rw0G001840 Rw0G018160 Rw0G018170 Rw3G028040 Rw5G017860 Rw5G026710 Rw6G012630 Rw6G012650 Rw6G012780 Rw6G012800 Rw7G019130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 228
Acc36I ACCTGC 1 cut(s) 228
AclI AACGTT 1 cut(s) 737
AclWI GGATC 2 cut(s) 254, 815
AcoI YGGCCR 1 cut(s) 516
AcsI RAATTY 1 cut(s) 596
AfaI GTAC 4 cut(s) 285, 592, 649, 690
AgsI TTSAA 7 cut(s) 301, 362, 460, 601, 638, 700, 941
AjuI GAANNNNNNNTTGG 4 cut(s) 66, 98, 171, 203
AluBI AGCT 5 cut(s) 124, 205, 226, 449, 703
AluI AGCT 5 cut(s) 124, 205, 226, 449, 703
Alw21I GWGCWC 1 cut(s) 219
Alw26I GTCTC 1 cut(s) 458
AlwI GGATC 2 cut(s) 254, 815
AoxI GGCC 1 cut(s) 516
ApeKI GCWGC 2 cut(s) 202, 223
ApoI RAATTY 1 cut(s) 596
AspS9I GGNCC 1 cut(s) 308
AsuHPI GGTGA 1 cut(s) 557
AvaII GGWCC 1 cut(s) 308
BalI TGGCCA 1 cut(s) 518
BarI GAAGNNNNNNTAC 2 cut(s) 692, 724
BbsI GAAGAC 1 cut(s) 264
Bbv12I GWGCWC 1 cut(s) 219
BbvI GCAGC 2 cut(s) 214, 235
BccI CCATC 3 cut(s) 49, 338, 541
BceAI ACGGC 1 cut(s) 99
BclI TGATCA 1 cut(s) 916
BcoDI GTCTC 1 cut(s) 458
BfaI CTAG 3 cut(s) 144, 537, 970
BfmI CTRYAG 2 cut(s) 45, 221
BfuAI ACCTGC 1 cut(s) 228
BisI GCNGC 2 cut(s) 203, 224
BlsI GCNGC 2 cut(s) 204, 225
Bme18I GGWCC 1 cut(s) 308
BmgT120I GGNCC 1 cut(s) 308
BmsI GCATC 2 cut(s) 101, 577
BpiI GAAGAC 1 cut(s) 264
BpmI CTGGAG 1 cut(s) 191
BsaJI CCNNGG 2 cut(s) 367, 643
Bse1I ACTGG 1 cut(s) 208
Bse3DI GCAATG 2 cut(s) 840, 846
BseDI CCNNGG 2 cut(s) 367, 643
BseGI GGATG 1 cut(s) 568
BseMI GCAATG 2 cut(s) 840, 846
BseMII CTCAG 1 cut(s) 441
BseNI ACTGG 1 cut(s) 208
BseXI GCAGC 2 cut(s) 214, 235
BseYI CCCAGC 1 cut(s) 263
Bsh1285I CGRYCG 1 cut(s) 315
BshFI GGCC 1 cut(s) 518
BsiEI CGRYCG 1 cut(s) 315
BsiHKAI GWGCWC 1 cut(s) 219
BslFI GGGAC 1 cut(s) 593
BsmAI GTCTC 1 cut(s) 458
BsmBI CGTCTC 1 cut(s) 458
BsmFI GGGAC 1 cut(s) 593
BsnI GGCC 1 cut(s) 518
Bsp1286I GDGCHC 1 cut(s) 219
Bsp143I GATC 6 cut(s) 259, 715, 749, 807, 856, 916
BspANI GGCC 1 cut(s) 518
BspCNI CTCAG 1 cut(s) 442
BspMAI CTGCAG 1 cut(s) 225
BspMI ACCTGC 1 cut(s) 228
BspPI GGATC 2 cut(s) 254, 815
BsrDI GCAATG 2 cut(s) 840, 846
BsrI ACTGG 1 cut(s) 208
BssECI CCNNGG 2 cut(s) 367, 643
BssMI GATC 6 cut(s) 259, 715, 749, 807, 856, 916
BssT1I CCWWGG 1 cut(s) 643
Bst4CI ACNGT 2 cut(s) 937, 948
BstDEI CTNAG 2 cut(s) 450, 575
BstDSI CCRYGG 1 cut(s) 367
BstF5I GGATG 1 cut(s) 568
BstKTI GATC 6 cut(s) 262, 718, 752, 810, 859, 919
BstMAI GTCTC 1 cut(s) 458
BstMBI GATC 6 cut(s) 259, 715, 749, 807, 856, 916
BstMCI CGRYCG 1 cut(s) 315
BstMWI GCNNNNNNNGC 2 cut(s) 199, 223
BstSFI CTRYAG 2 cut(s) 45, 221
BstV1I GCAGC 2 cut(s) 214, 235
BstV2I GAAGAC 1 cut(s) 264
BsuRI GGCC 1 cut(s) 518
BtgI CCRYGG 1 cut(s) 367
BtgZI GCGATG 1 cut(s) 124
BtsCI GGATG 1 cut(s) 568
BtsIMutI CAGTG 2 cut(s) 215, 886
BveI ACCTGC 1 cut(s) 228
Cfr13I GGNCC 1 cut(s) 308
Csp6I GTAC 4 cut(s) 284, 591, 648, 689
CspCI CAANNNNNGTGG 2 cut(s) 780, 815
CviAII CATG 4 cut(s) 287, 353, 728, 771
CviQI GTAC 4 cut(s) 284, 591, 648, 689
DdeI CTNAG 2 cut(s) 450, 575
DpnI GATC 6 cut(s) 261, 717, 751, 809, 858, 918
DpnII GATC 6 cut(s) 259, 715, 749, 807, 856, 916
DraI TTTAAA 1 cut(s) 130
EaeI YGGCCR 1 cut(s) 516
Eco130I CCWWGG 1 cut(s) 643
Eco32I GATATC 2 cut(s) 403, 422
Eco47I GGWCC 1 cut(s) 308
EcoRV GATATC 2 cut(s) 403, 422
EcoT14I CCWWGG 1 cut(s) 643
ErhI CCWWGG 1 cut(s) 643
Esp3I CGTCTC 1 cut(s) 458
FaeI CATG 4 cut(s) 290, 356, 731, 774
FaqI GGGAC 1 cut(s) 593
FatI CATG 4 cut(s) 286, 352, 727, 770
FbaI TGATCA 1 cut(s) 916
Fnu4HI GCNGC 2 cut(s) 203, 224
FokI GGATG 1 cut(s) 555
Fsp4HI GCNGC 2 cut(s) 203, 224
FspBI CTAG 3 cut(s) 144, 537, 970
GluI GCNGC 2 cut(s) 203, 224
GsaI CCCAGC 1 cut(s) 267
GsuI CTGGAG 1 cut(s) 191
HaeIII GGCC 1 cut(s) 518
Hin1II CATG 4 cut(s) 290, 356, 731, 774
HinfI GANTC 1 cut(s) 297
HphI GGTGA 1 cut(s) 557
Hpy166II GTNNAC 1 cut(s) 689
Hpy188I TCNGA 3 cut(s) 154, 312, 812
Hpy188III TCNNGA 2 cut(s) 144, 697
Hpy8I GTNNAC 1 cut(s) 689
Hpy99I CGWCG 1 cut(s) 725
HpyCH4III ACNGT 2 cut(s) 937, 948
HpyCH4IV ACGT 1 cut(s) 737
HpyCH4V TGCA 9 cut(s) 35, 170, 202, 223, 432, 512, 568, 770, 932
HpyF10VI GCNNNNNNNGC 2 cut(s) 199, 223
HpyF3I CTNAG 2 cut(s) 450, 575
HpySE526I ACGT 1 cut(s) 737
Hsp92II CATG 4 cut(s) 290, 356, 731, 774
Ksp22I TGATCA 1 cut(s) 916
Kzo9I GATC 6 cut(s) 259, 715, 749, 807, 856, 916
LmnI GCTCC 1 cut(s) 210
LpnPI CCDG 4 cut(s) 221, 233, 277, 528
Lsp1109I GCAGC 2 cut(s) 214, 235
LweI GCATC 2 cut(s) 101, 577
MaeI CTAG 3 cut(s) 144, 537, 970
MaeII ACGT 1 cut(s) 737
MaeIII GTNAC 1 cut(s) 948
MalI GATC 6 cut(s) 261, 717, 751, 809, 858, 918
MboI GATC 6 cut(s) 259, 715, 749, 807, 856, 916
MboII GAAGA 5 cut(s) 188, 264, 670, 744, 902
MhlI GDGCHC 1 cut(s) 219
MlsI TGGCCA 1 cut(s) 518
MluCI AATT 3 cut(s) 392, 596, 604
MluNI TGGCCA 1 cut(s) 518
MmeI TCCRAC 1 cut(s) 335
MnlI CCTC 7 cut(s) 274, 341, 778, 877, 889, 903, 919
Mox20I TGGCCA 1 cut(s) 518
MscI TGGCCA 1 cut(s) 518
MseI TTAA 4 cut(s) 129, 395, 654, 828
Msp20I TGGCCA 1 cut(s) 518
MwoI GCNNNNNNNGC 2 cut(s) 199, 223
NdeII GATC 6 cut(s) 259, 715, 749, 807, 856, 916
NlaIII CATG 4 cut(s) 290, 356, 731, 774
NmuCI GTSAC 1 cut(s) 948
PaqCI CACCTGC 1 cut(s) 228
PfeI GAWTC 1 cut(s) 297
PkrI GCNGC 2 cut(s) 204, 225
Psp1406I AACGTT 1 cut(s) 737
PspFI CCCAGC 1 cut(s) 263
PspPI GGNCC 1 cut(s) 308
PstI CTGCAG 1 cut(s) 225
RsaI GTAC 4 cut(s) 285, 592, 649, 690
RsaNI GTAC 4 cut(s) 284, 591, 648, 689
SaqAI TTAA 4 cut(s) 129, 395, 654, 828
SatI GCNGC 2 cut(s) 203, 224
Sau3AI GATC 6 cut(s) 259, 715, 749, 807, 856, 916
Sau96I GGNCC 1 cut(s) 308
SduI GDGCHC 1 cut(s) 219
SfaNI GCATC 2 cut(s) 101, 577
SfcI CTRYAG 2 cut(s) 45, 221
SinI GGWCC 1 cut(s) 308
Sse9I AATT 3 cut(s) 392, 596, 604
SspMI CTAG 3 cut(s) 144, 537, 970
StyI CCWWGG 1 cut(s) 643
TaaI ACNGT 2 cut(s) 937, 948
TaiI ACGT 1 cut(s) 740
TaqI TCGA 1 cut(s) 424
TaqII GACCGA 1 cut(s) 329
TasI AATT 3 cut(s) 392, 596, 604
TatI WGTACW 1 cut(s) 688
TfiI GAWTC 1 cut(s) 297
Tru1I TTAA 4 cut(s) 129, 395, 654, 828
Tru9I TTAA 4 cut(s) 129, 395, 654, 828
TscAI CASTG 2 cut(s) 215, 886
TseFI GTSAC 1 cut(s) 948
TseI GCWGC 2 cut(s) 202, 223
Tsp45I GTSAC 1 cut(s) 948
TspDTI ATGAA 5 cut(s) 17, 171, 609, 716, 903
TspGWI ACGGA 1 cut(s) 356
TspRI CASTG 2 cut(s) 215, 886
VpaK11BI GGWCC 1 cut(s) 308
XapI RAATTY 1 cut(s) 596
XbaI TCTAGA 1 cut(s) 143
XspI CTAG 3 cut(s) 144, 537, 970
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.