Rh6BG104200

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000571
Physical Location & Seq
Reverse (-)
16113066 .. 16114520
1455 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG104200.1

Sequence Viewer

Length: 624 bp
ATGTTGAGCAAAGGGATAGAGCCCACTAAGGAAACTTATACATCACTTATTTATGTTTTGAGTAAAAGGAAGAGAATGAATGAGGCAGATGACTTGTTTGAGAAGATACTGCGTAAGGGTGTTCTACCAGATCTTGTGATGTTCAATGCCTTGATTGATGGTCATTGTGCTAATGGGAATATGGAGCGTGCATTTTCGCTTTTGAGGGAGATGGATAAAATGAAGGTTAATCCAGATGAAGTCACTTACAATACCCTAATGCAAGGGCGCTGCAGGACAGGGAAAGTTGAGGAAGCTCGGGAACTTCTGGATGAGATGAAGAGAAGAGGAATTAAACCTGATTACATTAGTTACAACACCCTCATTAGTGGACATAGTAAACGAGGTGATATGAATGATGCCTTCAAAGTTCGAGACGAGATGTTGAGTAGAGGTTTCAATCCTACACTTATAACGTACAATGCTCTTATAAAAGGTCTATGCAAAAACCAAGAAGGTGAGCTTGCTCAAGAGCTCCTTAAAGAAATGGTGAGCAGAGGGATTACTCCCGATGACAGCACATATTACTCTCTGATTGAGGGAATTGAGAATGTTGAGGAATTTCTCAAACAGGGCGATTCATGA
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

207

Amino Acids

23.69

Weight (kDa)

5.62

Isoelectric Point (pI)

25.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 1 - 95 6.4e-09 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 11 - 45 4.1e-06 PPR repeat family
PPR PF01535 12 - 41 9e-06 PPR repeat
PPR_3 PF13812 32 - 88 1.2e-10 Pentatricopeptide repeat domain
PPR_1 PF12854 39 - 71 7e-12 PPR repeat
TPR_24 PF23276 40 - 137 1.2e-09 Fungal tetratrico peptide repeats
PPR_2 PF13041 43 - 92 1e-17 PPR repeat family
PPR PF01535 46 - 75 4.5e-08 PPR repeat
PPR_1 PF12854 76 - 107 3.4e-12 PPR repeat
PPR_2 PF13041 78 - 118 4.1e-15 PPR repeat family
PPR PF01535 81 - 111 2.2e-09 PPR repeat
PPR_long PF17177 96 - 193 1.9e-08 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 102 - 159 2.9e-15 Pentatricopeptide repeat domain
PPR_1 PF12854 109 - 141 1.5e-10 PPR repeat
PPR_2 PF13041 113 - 162 1.3e-18 PPR repeat family
PPR PF01535 116 - 146 2.1e-08 PPR repeat
PPR_1 PF12854 144 - 177 2.2e-09 PPR repeat
PPR_2 PF13041 148 - 194 2.4e-14 PPR repeat family
PPR PF01535 151 - 181 2.9e-08 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0000571)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G15630
fragaria_vesca FvH4_2g07360
malus_domestica MD02G1234600.v1.1
prunus_persica Prupe.8G019300_v2.0.a1
pyrus_communis pycom02g20240 pycom05g06440 pycom10g06900
rosa_chinensis RchiOBHm_Chr2g0106031 RchiOBHm_Chr2g0124301 RchiOBHm_Chr2g0124591 RchiOBHm_Chr5g0034701 RchiOBHm_Chr6g0257571 RchiOBHm_Chr6g0259961 RchiOBHm_Chr6g0260151 RchiOBHm_Chr6g0260161 RchiOBHm_Chr6g0260361 RchiOBHm_Chr6g0260391 RchiOBHm_Chr6g0260531 RchiOBHm_Chr6g0260541 RchiOBHm_Chr6g0260661 RchiOBHm_Chr6g0260761 RchiOBHm_Chr6g0266771 RchiOBHm_Chr7g0210581 RchiOBHm_Chr7g0225201 RchiOBHm_Chr7g0225221
rosa_laevigata RLG00000001833 RLG00000001834 RLG00000014081 RLG00000014490 RLG00000014495 RLG00000015073 RLG00000034098
rosa_multiflora Rmu_sc0000414.1_g000008 Rmu_sc0000546.1_g000067 Rmu_sc0000588.1_g000057 Rmu_sc0000861.1_g000058 Rmu_sc0000861.1_g000059 Rmu_sc0002766.1_g000023 Rmu_sc0002968.1_g000001 Rmu_sc0003786.1_g000024 Rmu_sc0005472.1_g000021 Rmu_sc0010278.1_g000006 Rmu_sc0014629.1_g000014 Rmu_sc0036189.1_g000001
rosa_roxburghii Rroxscaffold_3G00234010 Rroxscaffold_5G00368980 Rroxscaffold_7G00201460 Rroxscaffold_7G00207310 Rroxscaffold_7G00207360 Rroxscaffold_7G00207370 Rroxscaffold_7G00210730
rosa_rugosa Rorug05G0196300 Rorug05G0359600 Rorug05G0591800 Rorug05G0592300 Rorug05G0592700 Rorug06G0023500 Rorug07G0228100
rosa_samantha Rh2CG188200 Rh2DG333800 Rh4DG026900 Rh5CG249600 Rh6BG104200 Rh6BG104500 Rh6BG105900 Rh6BG106000 Rh6CG076700 Rh6CG097500 Rh6CG098200 Rh6CG100800 Rh6CG101000 Rh6CG101200 Rh6CG102400 Rh6CG144100 Rh6DG093200 Rh7AG375200 Rh7AG375300 Rh7BG360300
rosa_wichuraiana Rw0G020720 Rw5G026430 Rw6G009370 Rw6G009450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 452, 470
AcsI RAATTY 1 cut(s) 599
AfaI GTAC 1 cut(s) 458
AgsI TTSAA 3 cut(s) 145, 406, 439
AluBI AGCT 3 cut(s) 296, 502, 514
AluI AGCT 3 cut(s) 296, 502, 514
Alw21I GWGCWC 1 cut(s) 516
Alw26I GTCTC 1 cut(s) 408
Ama87I CYCGRG 1 cut(s) 297
ApeKI GCWGC 1 cut(s) 270
ApoI RAATTY 1 cut(s) 599
AspLEI GCGC 1 cut(s) 270
AsuHPI GGTGA 3 cut(s) 398, 509, 541
AvaI CYCGRG 1 cut(s) 297
BanII GRGCYC 2 cut(s) 24, 516
Bbv12I GWGCWC 1 cut(s) 516
BbvI GCAGC 1 cut(s) 257
BccI CCATC 2 cut(s) 152, 205
BcoDI GTCTC 1 cut(s) 408
BfmI CTRYAG 1 cut(s) 271
BfoI RGCGCY 1 cut(s) 271
BglII AGATCT 1 cut(s) 130
BisI GCNGC 1 cut(s) 271
BlsI GCNGC 1 cut(s) 272
BmeT110I CYCGRG 1 cut(s) 297
BmsI GCATC 1 cut(s) 388
BpuEI CTTGAG 1 cut(s) 492
BseGI GGATG 1 cut(s) 316
BseXI GCAGC 1 cut(s) 257
BsiHKAI GWGCWC 1 cut(s) 516
BsiHKCI CYCGRG 1 cut(s) 297
BsmAI GTCTC 1 cut(s) 408
BsmBI CGTCTC 1 cut(s) 408
BsoBI CYCGRG 1 cut(s) 297
Bsp1286I GDGCHC 2 cut(s) 24, 516
Bsp143I GATC 1 cut(s) 130
BspHI TCATGA 1 cut(s) 620
BspMAI CTGCAG 1 cut(s) 275
BssMI GATC 1 cut(s) 130
Bst6I CTCTTC 3 cut(s) 65, 314, 319
BstC8I GCNNGC 2 cut(s) 189, 504
BstDEI CTNAG 1 cut(s) 27
BstF5I GGATG 1 cut(s) 316
BstH2I RGCGCY 1 cut(s) 271
BstHHI GCGC 1 cut(s) 270
BstKTI GATC 1 cut(s) 133
BstMAI GTCTC 1 cut(s) 408
BstMBI GATC 1 cut(s) 130
BstSFI CTRYAG 1 cut(s) 271
BstV1I GCAGC 1 cut(s) 257
BstX2I RGATCY 1 cut(s) 130
BstYI RGATCY 1 cut(s) 130
BtsCI GGATG 1 cut(s) 316
Cac8I GCNNGC 2 cut(s) 189, 504
CciI TCATGA 1 cut(s) 620
CfoI GCGC 1 cut(s) 270
Csp6I GTAC 1 cut(s) 457
CviAII CATG 1 cut(s) 621
CviJI RGCY 4 cut(s) 22, 296, 502, 514
CviKI_1 RGCY 4 cut(s) 22, 296, 502, 514
CviQI GTAC 1 cut(s) 457
DdeI CTNAG 1 cut(s) 27
DpnI GATC 1 cut(s) 132
DpnII GATC 1 cut(s) 130
Eam1104I CTCTTC 3 cut(s) 65, 314, 319
EarI CTCTTC 3 cut(s) 65, 314, 319
Ecl136II GAGCTC 1 cut(s) 514
Eco24I GRGCYC 2 cut(s) 24, 516
Eco53kI GAGCTC 1 cut(s) 514
Eco88I CYCGRG 1 cut(s) 297
EcoICRI GAGCTC 1 cut(s) 514
EcoT38I GRGCYC 2 cut(s) 24, 516
Esp3I CGTCTC 1 cut(s) 408
FaeI CATG 1 cut(s) 624
FalI AAGNNNNNCTT 4 cut(s) 486, 518, 501, 533
FatI CATG 1 cut(s) 620
Fnu4HI GCNGC 1 cut(s) 271
FokI GGATG 1 cut(s) 323
FriOI GRGCYC 2 cut(s) 24, 516
Fsp4HI GCNGC 1 cut(s) 271
GlaI GCGC 1 cut(s) 269
GluI GCNGC 1 cut(s) 271
HaeII RGCGCY 1 cut(s) 271
HhaI GCGC 1 cut(s) 270
Hin1II CATG 1 cut(s) 624
Hin6I GCGC 1 cut(s) 268
HinP1I GCGC 1 cut(s) 268
HinfI GANTC 1 cut(s) 617
HphI GGTGA 3 cut(s) 398, 509, 541
Hpy166II GTNNAC 2 cut(s) 371, 380
Hpy188I TCNGA 1 cut(s) 573
Hpy188III TCNNGA 7 cut(s) 233, 299, 308, 413, 509, 548, 621
Hpy8I GTNNAC 2 cut(s) 371, 380
HpyAV CCTTC 3 cut(s) 217, 412, 488
HpyCH4IV ACGT 1 cut(s) 455
HpyCH4V TGCA 4 cut(s) 191, 262, 273, 483
HpyF3I CTNAG 1 cut(s) 27
HpySE526I ACGT 1 cut(s) 455
Hsp92II CATG 1 cut(s) 624
HspAI GCGC 1 cut(s) 268
Kzo9I GATC 1 cut(s) 130
LmnI GCTCC 2 cut(s) 184, 519
LpnPI CCDG 7 cut(s) 141, 246, 259, 264, 293, 351, 596
Lsp1109I GCAGC 1 cut(s) 257
LweI GCATC 1 cut(s) 388
MaeII ACGT 1 cut(s) 455
MaeIII GTNAC 2 cut(s) 241, 350
MalI GATC 1 cut(s) 132
MboI GATC 1 cut(s) 130
MboII GAAGA 4 cut(s) 82, 115, 331, 336
MflI RGATCY 1 cut(s) 130
MhlI GDGCHC 2 cut(s) 24, 516
MluCI AATT 3 cut(s) 330, 582, 599
MseI TTAA 3 cut(s) 228, 333, 519
NdeII GATC 1 cut(s) 130
NlaIII CATG 1 cut(s) 624
NmuCI GTSAC 1 cut(s) 241
PagI TCATGA 1 cut(s) 620
PfeI GAWTC 1 cut(s) 617
PkrI GCNGC 1 cut(s) 272
PsiI TTATAA 2 cut(s) 452, 470
Psp124BI GAGCTC 1 cut(s) 516
PstI CTGCAG 1 cut(s) 275
PsuI RGATCY 1 cut(s) 130
RsaI GTAC 1 cut(s) 458
RsaNI GTAC 1 cut(s) 457
SacI GAGCTC 1 cut(s) 516
SaqAI TTAA 3 cut(s) 228, 333, 519
SatI GCNGC 1 cut(s) 271
Sau3AI GATC 1 cut(s) 130
SduI GDGCHC 2 cut(s) 24, 516
SfaNI GCATC 1 cut(s) 388
SfcI CTRYAG 1 cut(s) 271
SmlI CTYRAG 1 cut(s) 507
SmoI CTYRAG 1 cut(s) 507
Sse9I AATT 3 cut(s) 330, 582, 599
SstI GAGCTC 1 cut(s) 516
TaiI ACGT 1 cut(s) 458
TaqI TCGA 1 cut(s) 412
TasI AATT 3 cut(s) 330, 582, 599
TfiI GAWTC 1 cut(s) 617
Tru1I TTAA 3 cut(s) 228, 333, 519
Tru9I TTAA 3 cut(s) 228, 333, 519
TseFI GTSAC 1 cut(s) 241
TseI GCWGC 1 cut(s) 270
Tsp45I GTSAC 1 cut(s) 241
TspDTI ATGAA 6 cut(s) 92, 236, 252, 332, 407, 609
XapI RAATTY 1 cut(s) 599
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.