Rh6AG064100

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000040
Physical Location & Seq
Reverse (-)
9465397 .. 9470751
5355 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG064100.1

Sequence Viewer

Length: 432 bp
ATGGAAGACAAAGGACATGCTGAACGATTTGTATGGCCAGATGGGGATGTGAATCAACTACAATGGCGTGCATTGGTACTTCATTGGGACAAATTTGGTGAGAAAAAATCAGTGACTACCAAGAAGAATAGAAGTCAGTTGAAGGTGGCTGCAAACACCGGAACAAAGACATTTGCCCAAATACGATCTGAATGGGAACTTGCAAACGAAGGGAAAGAAATAGATCGCTGCACATTCTGGAGATTGATTCATAGAAAACCAAAGAAAGACGTTACTGGGACCGTGCCAATTAATGACGAAGCAGAAAAAATCTTTTTGGAATTGGATAAGCTTGAGCAAAGGGAGCGCTTAAATGGCAAGGAACTCACTATAGACTTATTGAATGAATTGTTTTGTGAGCAATTTGGACCAGAGACATATAATGCAGTTTGA
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 Transposase_24

Protein Analysis

143

Amino Acids

16.74

Weight (kDa)

6.33

Isoelectric Point (pI)

18.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 20 - 139 1.4e-11 Plant transposase (Ptta/En/Spm family)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000040)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g00150 FvH4_2g13531 FvH4_2g21543 FvH4_3g32800 FvH4_3g32802 FvH4_4g00091 FvH4_4g00092 FvH4_5g22070 FvH4_5g31391 FvH4_6g11351 FvH4_6g23430 FvH4_6g23672 FvH4_6g52753
malus_domestica MD03G1101500.v1.1 MD08G1234800.v1.1
pyrus_communis pycom07g24860 pycom09g07860 pycom10g09330 pycom10g15360 pycom11g01600 pycom11g13460 pycom13g15580
rosa_chinensis RchiOBHm_Chr1g0332021 RchiOBHm_Chr2g0095801 RchiOBHm_Chr2g0111771 RchiOBHm_Chr2g0127541 RchiOBHm_Chr2g0136581 RchiOBHm_Chr2g0136591 RchiOBHm_Chr2g0143311 RchiOBHm_Chr2g0145131 RchiOBHm_Chr2g0151391 RchiOBHm_Chr3g0468771 RchiOBHm_Chr3g0473281 RchiOBHm_Chr3g0481961 RchiOBHm_Chr4g0393741 RchiOBHm_Chr4g0397391 RchiOBHm_Chr4g0435991 RchiOBHm_Chr5g0015951 RchiOBHm_Chr5g0016651 RchiOBHm_Chr5g0039191 RchiOBHm_Chr5g0039211 RchiOBHm_Chr6g0254441 RchiOBHm_Chr6g0260911 RchiOBHm_Chr6g0274501 RchiOBHm_Chr6g0274511 RchiOBHm_Chr7g0184951 RchiOBHm_Chr7g0201701 RchiOBHm_Chr7g0201721 RchiOBHm_Chr7g0201731 RchiOBHm_Chr7g0234921 RchiOBHm_Chr7g0237841
rosa_laevigata RLG00000001204 RLG00000001230 RLG00000001341 RLG00000001513 RLG00000001971 RLG00000002177 RLG00000002360 RLG00000003112 RLG00000003130 RLG00000003854 RLG00000008209 RLG00000008322 RLG00000008412 RLG00000008524 RLG00000009491 RLG00000009908 RLG00000011823 RLG00000013252 RLG00000013782 RLG00000013944 RLG00000014480 RLG00000019084 RLG00000019544 RLG00000019751 RLG00000020093 RLG00000020094 RLG00000020551 RLG00000020838 RLG00000020982 RLG00000021059 RLG00000022067 RLG00000022604 RLG00000022632 RLG00000022849 RLG00000023962 RLG00000025767 RLG00000026838 RLG00000027291 RLG00000028131 RLG00000028210 RLG00000028834 RLG00000030169 RLG00000031271 RLG00000032327 RLG00000033996 RLG00000034546 RLG00000034654 RLG00000034810 RLG00000035087 RLG00000036782
rosa_multiflora Rmu_co8330487.1_g000001 Rmu_co8359977.1_g000001 Rmu_co8445341.1_g000001 Rmu_sc0000141.1_g000003 Rmu_sc0000353.1_g000018 Rmu_sc0000740.1_g000017 Rmu_sc0000744.1_g000138 Rmu_sc0000813.1_g000014 Rmu_sc0000908.1_g000003 Rmu_sc0000999.1_g000014 Rmu_sc0001103.1_g000001 Rmu_sc0001248.1_g000013 Rmu_sc0001282.1_g000021 Rmu_sc0001293.1_g000018 Rmu_sc0001608.1_g000015 Rmu_sc0001616.1_g000060 Rmu_sc0001851.1_g000013 Rmu_sc0001990.1_g000003 Rmu_sc0002138.1_g000002 Rmu_sc0002200.1_g000021 Rmu_sc0002230.1_g000029 Rmu_sc0002230.1_g000030 Rmu_sc0002702.1_g000017 Rmu_sc0002806.1_g000010 Rmu_sc0002809.1_g000023 Rmu_sc0002869.1_g000005 Rmu_sc0003156.1_g000027 Rmu_sc0003368.1_g000018 Rmu_sc0003642.1_g000007 Rmu_sc0003653.1_g000004 Rmu_sc0003791.1_g000008 Rmu_sc0003804.1_g000013 Rmu_sc0004015.1_g000022 Rmu_sc0004230.1_g000017 Rmu_sc0004368.1_g000011 Rmu_sc0004529.1_g000011 Rmu_sc0004540.1_g000011 Rmu_sc0005008.1_g000014 Rmu_sc0005171.1_g000001 Rmu_sc0005212.1_g000013 Rmu_sc0005947.1_g000003 Rmu_sc0006317.1_g000026 Rmu_sc0006578.1_g000005 Rmu_sc0006993.1_g000001 Rmu_sc0007442.1_g000002 Rmu_sc0007442.1_g000004 Rmu_sc0007876.1_g000004 Rmu_sc0007876.1_g000005 Rmu_sc0009624.1_g000004 Rmu_sc0009742.1_g000005 Rmu_sc0010306.1_g000007 Rmu_sc0011745.1_g000008 Rmu_sc0011800.1_g000003 Rmu_sc0012369.1_g000003 Rmu_sc0012787.1_g000003 Rmu_sc0012989.1_g000001 Rmu_sc0013416.1_g000003 Rmu_sc0021155.1_g000001 Rmu_sc0022372.1_g000001 Rmu_sc0023106.1_g000001 Rmu_sc0023684.1_g000003 Rmu_sc0023684.1_g000004 Rmu_sc0026897.1_g000001 Rmu_sc0027278.1_g000001 Rmu_sc0028533.1_g000001 Rmu_sc0028533.1_g000003 Rmu_sc0038440.1_g000001
rosa_roxburghii Rroxscaffold_1G00031730 Rroxscaffold_1G00033690 Rroxscaffold_1G00073100 Rroxscaffold_2G00079640 Rroxscaffold_2G00089760 Rroxscaffold_2G00091520 Rroxscaffold_2G00112420 Rroxscaffold_2G00115720 Rroxscaffold_2G00116170 Rroxscaffold_2G00116180 Rroxscaffold_2G00152590 Rroxscaffold_2G00155940 Rroxscaffold_3G00220010 Rroxscaffold_3G00234940 Rroxscaffold_3G00235250 Rroxscaffold_3G00237510 Rroxscaffold_3G00250950 Rroxscaffold_3G00250960 Rroxscaffold_3G00262030 Rroxscaffold_4G00299560 Rroxscaffold_4G00306000 Rroxscaffold_4G00311350 Rroxscaffold_4G00318530 Rroxscaffold_4G00329140 Rroxscaffold_5G00342020 Rroxscaffold_5G00350770 Rroxscaffold_5G00354620 Rroxscaffold_5G00354630 Rroxscaffold_5G00361180 Rroxscaffold_5G00377270 Rroxscaffold_6G00397870 Rroxscaffold_6G00397960 Rroxscaffold_6G00407290 Rroxscaffold_6G00408690 Rroxscaffold_6G00421900 Rroxscaffold_6G00421910 Rroxscaffold_7G00181630 Rroxscaffold_7G00182330 Rroxscaffold_7G00182340 Rroxscaffold_7G00212590 Rroxscaffold_7G00214060 Rroxscaffold_7G00214070 Rroxscaffold_7G00215940
rosa_rugosa Rorug01G0052800 Rorug01G0052800 Rorug01G0075200 Rorug01G0090500 Rorug01G0091500 Rorug01G0106000 Rorug01G0309300 Rorug01G0309400.1 Rorug02G0092000 Rorug02G0128200 Rorug02G0152800 Rorug02G0366100 Rorug02G0401500 Rorug02G0465600 Rorug02G0474400 Rorug03G0322500 Rorug04G0044000 Rorug04G0044100 Rorug04G0064800.1 Rorug04G0077400 Rorug04G0094800 Rorug04G0094800 Rorug04G0111400 Rorug04G0137800 Rorug04G0137900 Rorug04G0138000 Rorug04G0138000 Rorug04G0446200 Rorug05G0090600 Rorug05G0239900 Rorug05G0284400 Rorug05G0534400 Rorug05G0561600 Rorug06G0098100 Rorug06G0098100 Rorug06G0134500 Rorug06G0238500 Rorug06G0238600 Rorug07G0228900 Rorug07G0229000 Rorug07G0291600 Rorug07G0291700
rosa_samantha Rh1AG082200 Rh1AG129200 Rh1AG131500 Rh1AG159900 Rh1AG330800 Rh1AG408400 Rh1BG089600 Rh1CG086000 Rh1CG149200 Rh1CG405600 Rh1DG008200 Rh1DG015800 Rh1DG068000 Rh1DG118400 Rh1DG122500 Rh1DG202400 Rh1DG202500 Rh1DG266300 Rh1DG266400 Rh1DG287400 Rh1DG314700 Rh1DG314800 Rh2AG128400 Rh2AG128500 Rh2AG291000 Rh2AG347900 Rh2AG350700 Rh2AG415100 Rh2AG417200 Rh2AG497700 Rh2AG505000 Rh2AG507600 Rh2BG131300 Rh2BG233900 Rh2BG291700 Rh2BG291800 Rh2BG302700 Rh2BG302800 Rh2BG334700 Rh2BG334900 Rh2BG347000 Rh2BG347800 Rh2BG357100 Rh2BG528200 Rh2BG528300 Rh2BG603700 Rh2CG032300 Rh2CG034300 Rh2CG232600 Rh2CG483700 Rh2DG077400 Rh2DG103100 Rh2DG103200 Rh2DG287000 Rh2DG287200 Rh2DG375000 Rh2DG382700 Rh2DG537400 Rh2DG602900 Rh2DG603000 Rh3AG080800 Rh3AG217300 Rh3AG321800 Rh3BG082700 Rh3BG082800 Rh3BG168600 Rh3BG185900 Rh3BG224400 Rh3BG250500 Rh3BG260700 Rh3BG351300 Rh3BG353600 Rh3BG353700 Rh3CG082900 Rh3CG083000 Rh3CG176200 Rh3CG176300 Rh3CG219400 Rh3CG219500 Rh3CG254600 Rh3CG254700 Rh3CG256000 Rh3CG256100 Rh3CG257400 Rh3CG356200 Rh3CG356300 Rh3DG084300 Rh4AG030500 Rh4BG132300 Rh4BG139800 Rh4BG140000 Rh4CG027200 Rh4CG033100 Rh4CG033200 Rh4CG069600 Rh4CG103300 Rh4CG322600 Rh4DG028500 Rh4DG081000 Rh4DG190200 Rh4DG193500 Rh4DG212900 Rh4DG303900 Rh4DG342900 Rh5AG131000 Rh5AG166800 Rh5AG167000 Rh5AG201600 Rh5AG372200 Rh5AG372300 Rh5AG417900 Rh5BG082500 Rh5BG171200 Rh5BG171300 Rh5BG180300 Rh5BG194400 Rh5BG302800 Rh5BG343300 Rh5BG402700 Rh5BG428500 Rh5CG190700 Rh5CG190800 Rh5CG219100 Rh5CG451900 Rh5DG175200 Rh5DG175400 Rh5DG177000 Rh5DG177100 Rh5DG356000 Rh5DG356100 Rh5DG493500 Rh6AG006700 Rh6AG051700 Rh6AG064100 Rh6AG064200 Rh6AG064500 Rh6AG092800 Rh6AG152000 Rh6AG152100 Rh6AG291900 Rh6AG419000 Rh6AG465900 Rh6AG466000 Rh6BG125000 Rh6BG160600 Rh6BG161800 Rh6BG359100 Rh6BG359200 Rh6CG071400 Rh6CG071500 Rh6CG103500 Rh6CG103600 Rh6CG117200 Rh6CG123700 Rh6CG123800 Rh6CG156600 Rh6CG192500 Rh6CG208600 Rh6CG208700 Rh6CG365200 Rh6DG146200 Rh6DG146800 Rh6DG193200 Rh6DG193300 Rh6DG193400 Rh6DG349200 Rh7AG251100 Rh7AG259300 Rh7AG425100 Rh7BG262700 Rh7BG262900 Rh7BG369500 Rh7CG107400 Rh7CG107500 Rh7CG257400 Rh7CG267300 Rh7DG070500 Rh7DG105000 Rh7DG198500 Rh7DG291300 Rh7DG480600
rosa_wichuraiana Rw2G027920 Rw3G014750 Rw3G021490 Rw4G001910 Rw6G013120 Rw6G020040 Rw6G022930 Rw6G041900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcoI YGGCCR 1 cut(s) 35
AcsI RAATTY 1 cut(s) 92
AfaI GTAC 1 cut(s) 78
AfeI AGCGCT 1 cut(s) 347
AgsI TTSAA 2 cut(s) 142, 382
AluBI AGCT 1 cut(s) 331
AluI AGCT 1 cut(s) 331
Alw26I GTCTC 1 cut(s) 407
Aor51HI AGCGCT 1 cut(s) 347
AoxI GGCC 1 cut(s) 35
ApeKI GCWGC 2 cut(s) 149, 228
ApoI RAATTY 1 cut(s) 92
AseI ATTAAT 1 cut(s) 291
AspLEI GCGC 1 cut(s) 348
AspS9I GGNCC 2 cut(s) 279, 407
AsuHPI GGTGA 1 cut(s) 110
AvaII GGWCC 2 cut(s) 279, 407
BalI TGGCCA 1 cut(s) 37
BbsI GAAGAC 1 cut(s) 12
BbvI GCAGC 2 cut(s) 136, 215
BccI CCATC 1 cut(s) 35
BcoDI GTCTC 1 cut(s) 407
BfmI CTRYAG 1 cut(s) 369
BfoI RGCGCY 1 cut(s) 349
BisI GCNGC 2 cut(s) 150, 229
BlsI GCNGC 2 cut(s) 151, 230
Bme18I GGWCC 2 cut(s) 279, 407
BmgT120I GGNCC 2 cut(s) 279, 407
BmiI GGNNCC 1 cut(s) 280
BmrI ACTGGG 1 cut(s) 285
BmuI ACTGGG 1 cut(s) 285
BpiI GAAGAC 1 cut(s) 12
BpmI CTGGAG 1 cut(s) 259
BpuEI CTTGAG 1 cut(s) 353
BsaBI GATNNNNATC 1 cut(s) 51
BsaWI WCCGGW 1 cut(s) 158
Bse1I ACTGG 1 cut(s) 280
Bse8I GATNNNNATC 1 cut(s) 51
BseGI GGATG 1 cut(s) 52
BseJI GATNNNNATC 1 cut(s) 51
BseNI ACTGG 1 cut(s) 280
BseXI GCAGC 2 cut(s) 136, 215
BsgI GTGCAG 1 cut(s) 214
BshFI GGCC 1 cut(s) 37
BsiSI CCGG 1 cut(s) 159
BslFI GGGAC 2 cut(s) 101, 292
BsmAI GTCTC 1 cut(s) 407
BsmFI GGGAC 2 cut(s) 101, 292
BsnI GGCC 1 cut(s) 37
Bsp143I GATC 2 cut(s) 185, 223
BspANI GGCC 1 cut(s) 37
BspLI GGNNCC 1 cut(s) 280
BsrI ACTGG 1 cut(s) 280
BssMI GATC 2 cut(s) 185, 223
Bst4CI ACNGT 1 cut(s) 283
BstC8I GCNNGC 1 cut(s) 69
BstF5I GGATG 1 cut(s) 52
BstH2I RGCGCY 1 cut(s) 349
BstHHI GCGC 1 cut(s) 348
BstKTI GATC 2 cut(s) 188, 226
BstMAI GTCTC 1 cut(s) 407
BstMBI GATC 2 cut(s) 185, 223
BstMWI GCNNNNNNNGC 2 cut(s) 343, 354
BstNSI RCATGY 1 cut(s) 20
BstSFI CTRYAG 1 cut(s) 369
BstV1I GCAGC 2 cut(s) 136, 215
BstV2I GAAGAC 1 cut(s) 12
BsuRI GGCC 1 cut(s) 37
BtsCI GGATG 1 cut(s) 52
BtsIMutI CAGTG 1 cut(s) 117
Cac8I GCNNGC 1 cut(s) 69
CfoI GCGC 1 cut(s) 348
Cfr13I GGNCC 2 cut(s) 279, 407
Csp6I GTAC 1 cut(s) 77
CviAII CATG 1 cut(s) 17
CviJI RGCY 3 cut(s) 37, 149, 331
CviKI_1 RGCY 3 cut(s) 37, 149, 331
CviQI GTAC 1 cut(s) 77
DpnI GATC 2 cut(s) 187, 225
DpnII GATC 2 cut(s) 185, 223
EaeI YGGCCR 1 cut(s) 35
Eco47I GGWCC 2 cut(s) 279, 407
Eco47III AGCGCT 1 cut(s) 347
FaeI CATG 1 cut(s) 20
FaiI YATR 6 cut(s) 18, 34, 252, 371, 418, 420
FaqI GGGAC 2 cut(s) 101, 292
FatI CATG 1 cut(s) 16
Fnu4HI GCNGC 2 cut(s) 150, 229
FokI GGATG 1 cut(s) 59
Fsp4HI GCNGC 2 cut(s) 150, 229
GlaI GCGC 1 cut(s) 347
GluI GCNGC 2 cut(s) 150, 229
GsuI CTGGAG 1 cut(s) 259
HaeII RGCGCY 1 cut(s) 349
HaeIII GGCC 1 cut(s) 37
HapII CCGG 1 cut(s) 159
HhaI GCGC 1 cut(s) 348
Hin1II CATG 1 cut(s) 20
Hin6I GCGC 1 cut(s) 346
HinP1I GCGC 1 cut(s) 346
HindIII AAGCTT 1 cut(s) 329
HinfI GANTC 2 cut(s) 52, 247
HpaII CCGG 1 cut(s) 159
HphI GGTGA 1 cut(s) 110
Hpy188I TCNGA 1 cut(s) 190
Hpy188III TCNNGA 1 cut(s) 238
HpyAV CCTTC 2 cut(s) 136, 203
HpyCH4III ACNGT 1 cut(s) 283
HpyCH4IV ACGT 1 cut(s) 270
HpyCH4V TGCA 5 cut(s) 71, 152, 203, 231, 425
HpyF10VI GCNNNNNNNGC 2 cut(s) 343, 354
HpySE526I ACGT 1 cut(s) 270
Hsp92II CATG 1 cut(s) 20
HspAI GCGC 1 cut(s) 346
Kzo9I GATC 2 cut(s) 185, 223
LmnI GCTCC 1 cut(s) 343
LpnPI CCDG 5 cut(s) 51, 172, 223, 261, 423
Lsp1109I GCAGC 2 cut(s) 136, 215
MaeII ACGT 1 cut(s) 270
MaeIII GTNAC 2 cut(s) 112, 271
MalI GATC 2 cut(s) 187, 225
MboI GATC 2 cut(s) 185, 223
MboII GAAGA 2 cut(s) 17, 136
MlsI TGGCCA 1 cut(s) 37
MluCI AATT 5 cut(s) 92, 288, 320, 386, 401
MluNI TGGCCA 1 cut(s) 37
Mox20I TGGCCA 1 cut(s) 37
MscI TGGCCA 1 cut(s) 37
MseI TTAA 2 cut(s) 291, 350
Msp20I TGGCCA 1 cut(s) 37
MspI CCGG 1 cut(s) 159
MwoI GCNNNNNNNGC 2 cut(s) 343, 354
NdeII GATC 2 cut(s) 185, 223
NlaIII CATG 1 cut(s) 20
NlaIV GGNNCC 1 cut(s) 280
NmuCI GTSAC 1 cut(s) 112
NspI RCATGY 1 cut(s) 20
PfeI GAWTC 2 cut(s) 52, 247
PkrI GCNGC 2 cut(s) 151, 230
PshBI ATTAAT 1 cut(s) 291
PspN4I GGNNCC 1 cut(s) 280
PspPI GGNCC 2 cut(s) 279, 407
RsaI GTAC 1 cut(s) 78
RsaNI GTAC 1 cut(s) 77
SaqAI TTAA 2 cut(s) 291, 350
SatI GCNGC 2 cut(s) 150, 229
Sau3AI GATC 2 cut(s) 185, 223
Sau96I GGNCC 2 cut(s) 279, 407
SetI ASST 3 cut(s) 147, 273, 333
SfcI CTRYAG 1 cut(s) 369
SinI GGWCC 2 cut(s) 279, 407
SmlI CTYRAG 1 cut(s) 332
SmoI CTYRAG 1 cut(s) 332
Sse9I AATT 5 cut(s) 92, 288, 320, 386, 401
TaaI ACNGT 1 cut(s) 283
TaiI ACGT 1 cut(s) 273
TasI AATT 5 cut(s) 92, 288, 320, 386, 401
TfiI GAWTC 2 cut(s) 52, 247
Tru1I TTAA 2 cut(s) 291, 350
Tru9I TTAA 2 cut(s) 291, 350
TscAI CASTG 1 cut(s) 117
TseFI GTSAC 1 cut(s) 112
TseI GCWGC 2 cut(s) 149, 228
Tsp45I GTSAC 1 cut(s) 112
TspDTI ATGAA 3 cut(s) 71, 239, 399
TspRI CASTG 1 cut(s) 117
VpaK11BI GGWCC 2 cut(s) 279, 407
VspI ATTAAT 1 cut(s) 291
XapI RAATTY 1 cut(s) 92
XceI RCATGY 1 cut(s) 20
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.