RchiOBHm_Chr3g0460001

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000146
Physical Location & Seq
Forward (+)
8255483 .. 8256861
1379 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ42654

Sequence Viewer

Length: 822 bp
ATGATTCCATCACTGATGCAGAGATTCATTCGTCTTGGCACCGCTCAAGAAATCTGGAAAGCTGTTTCCAAAACCTTTTATGATGGGTCTGATGAGACCCGCATTTTTGAGTTGAACCGGAAATCATTCACCACTCTACAGAATTGTAGACCTCTCTCTACATATTATAATGAATTGATTGCTATTTTTCAAGAAATTGATCATAGGAGCACAACTCAAGAAGACACGGTGGAAGGAGTTATTCAGCTCAGTACTTCAATGCAAAGACTGCGGGTTCATATCTTCTTGAGTGGTCTTGATTCAGACTTTGACCAGGTACGTGGAGAAATTTTGCGGAAGGAACCAAAGCTGGATCTTGAAAGCAGTTATGCCTATGTGCGTATGGTGGAGCAACAAAAGAAGACTATGGGAAATTCTTCAGTGAATACAGAAAGTACAGTTATGGCTGTCAATAGACTTAACCTGGAGGGCTCCGCTGCAATTACCAATCGTCCTAGACAAGGCCCACCTCCAGGATTCCCACAAACAAAACCCGGAGCTTCTCAACAAAGTTTTCAGCCTCGGAATAGCTCCTTCATACGACCCGGTGGTTTGGTGTGTCACCATTGTGGGGAAGCTGGTCACTCTAAGTGGAAATGTTATGAAATTGTGGGTTATCCCGAATGGTGGGATTTCACCAAGAAGCCTCGGAAGAACATTAAAGGCAAAGCTGCAGTTGCAACTACGGAAACATCTAAAAAAACAGATACTTGCTCGCTGCCTCAAGCAAATGTGACTCAAACAGGACATCCTAACCCGGAAGATTCTTGGCTTTGGTGTTAG
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
Retrotran_gag_2

Protein Analysis

273

Amino Acids

30.97

Weight (kDa)

8.84

Isoelectric Point (pI)

43.16

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: OG0000146)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g19561 FvH4_1g25371 FvH4_1g25961 FvH4_2g00352 FvH4_2g00861 FvH4_2g04952 FvH4_2g05413 FvH4_2g07531 FvH4_2g08961 FvH4_2g25141 FvH4_2g27292 FvH4_3g18164 FvH4_3g19921 FvH4_3g43870 FvH4_4g14441 FvH4_4g15581 FvH4_4g15582 FvH4_4g16890 FvH4_4g19782 FvH4_4g33444 FvH4_4g33921 FvH4_5g22281 FvH4_5g22282 FvH4_5g32571 FvH4_5g37451 FvH4_5g39631 FvH4_6g04721 FvH4_6g11661 FvH4_6g20571 FvH4_6g32791 FvH4_7g23184
prunus_persica Prupe.1G090900_v2.0.a1 Prupe.1G241200_v2.0.a1 Prupe.1G534100_v2.0.a1 Prupe.3G076700_v2.0.a1 Prupe.4G150800_v2.0.a1 Prupe.4G181800_v2.0.a1 Prupe.4G240900_v2.0.a1 Prupe.4G247600_v2.0.a1 Prupe.6G115900_v2.0.a1 Prupe.6G327500_v2.0.a1 Prupe.8G071700_v2.0.a1
pyrus_communis pycom06g11480 pycom10g08330 pycom15g04320 pycom15g04350 pycom15g12620 pycom2874g00060
rosa_chinensis RchiOBHm_Chr1g0317241 RchiOBHm_Chr1g0341801 RchiOBHm_Chr1g0341931 RchiOBHm_Chr1g0359621 RchiOBHm_Chr2g0113741 RchiOBHm_Chr2g0117261 RchiOBHm_Chr2g0138831 RchiOBHm_Chr2g0141421 RchiOBHm_Chr2g0145281 RchiOBHm_Chr2g0152991 RchiOBHm_Chr3g0448001 RchiOBHm_Chr3g0450981 RchiOBHm_Chr3g0455161 RchiOBHm_Chr3g0457401 RchiOBHm_Chr3g0460001 RchiOBHm_Chr4g0387431 RchiOBHm_Chr4g0388741 RchiOBHm_Chr4g0444201 RchiOBHm_Chr4g0444261 RchiOBHm_Chr5g0010221 RchiOBHm_Chr6g0271721 RchiOBHm_Chr6g0274641 RchiOBHm_Chr6g0294691 RchiOBHm_Chr7g0237031 RchiOBHm_Chr7g0238461 RchiOBHm_Chr7g0239981
rosa_laevigata RLG00000009017
rosa_multiflora Rmu_co7986768.1_g000001 Rmu_co8302239.1_g000001 Rmu_co8485799.1_g000001 Rmu_sc0000061.1_g000013 Rmu_sc0000303.1_g000034 Rmu_sc0000303.1_g000035 Rmu_sc0000315.1_g000017 Rmu_sc0000349.1_g000003 Rmu_sc0000498.1_g000068 Rmu_sc0000508.1_g000014 Rmu_sc0000602.1_g000001 Rmu_sc0000633.1_g000002 Rmu_sc0000638.1_g000030 Rmu_sc0000756.1_g000016 Rmu_sc0000756.1_g000017 Rmu_sc0000785.1_g000037 Rmu_sc0000795.1_g000017 Rmu_sc0000796.1_g000030 Rmu_sc0000863.1_g000023 Rmu_sc0000920.1_g000021 Rmu_sc0000960.1_g000015 Rmu_sc0000982.1_g000102 Rmu_sc0001036.1_g000008 Rmu_sc0001036.1_g000009 Rmu_sc0001643.1_g000029 Rmu_sc0001687.1_g000026 Rmu_sc0001708.1_g000037 Rmu_sc0001768.1_g000015 Rmu_sc0001790.1_g000022 Rmu_sc0002180.1_g000007 Rmu_sc0002211.1_g000006 Rmu_sc0002270.1_g000010 Rmu_sc0002404.1_g000031 Rmu_sc0002858.1_g000016 Rmu_sc0003063.1_g000028 Rmu_sc0003730.1_g000017 Rmu_sc0004087.1_g000020 Rmu_sc0004618.1_g000048 Rmu_sc0004724.1_g000005 Rmu_sc0005167.1_g000036 Rmu_sc0005781.1_g000003 Rmu_sc0005878.1_g000012 Rmu_sc0006011.1_g000003 Rmu_sc0006343.1_g000011 Rmu_sc0006573.1_g000007 Rmu_sc0006599.1_g000007 Rmu_sc0006803.1_g000014 Rmu_sc0006836.1_g000002 Rmu_sc0006849.1_g000002 Rmu_sc0007109.1_g000009 Rmu_sc0009268.1_g000016 Rmu_sc0009618.1_g000017 Rmu_sc0009674.1_g000009 Rmu_sc0010244.1_g000009 Rmu_sc0011151.1_g000004 Rmu_sc0011356.1_g000001 Rmu_sc0011674.1_g000002 Rmu_sc0011778.1_g000016 Rmu_sc0012342.1_g000001 Rmu_sc0012467.1_g000002 Rmu_sc0012574.1_g000003 Rmu_sc0012913.1_g000005 Rmu_sc0013612.1_g000020 Rmu_sc0014824.1_g000001 Rmu_sc0017869.1_g000002 Rmu_sc0018085.1_g000003 Rmu_sc0024789.1_g000001 Rmu_sc0025106.1_g000013 Rmu_sc0034502.1_g000001 Rmu_sc0034547.1_g000001 Rmu_sc0035094.1_g000001 Rmu_sc0035095.1_g000001 Rmu_ssc0000100.1_g000027 Rmu_ssc0000244.1_g000005 Rmu_ssc0000371.1_g000029 Rmu_ssc0000381.1_g000004
rosa_roxburghii Rroxscaffold_1G00015480 Rroxscaffold_1G00023580 Rroxscaffold_1G00039340 Rroxscaffold_1G00047080 Rroxscaffold_2G00095820 Rroxscaffold_2G00125200 Rroxscaffold_2G00128330 Rroxscaffold_3G00270860
rosa_rugosa Rorug06G0120700
rosa_samantha Rh3BG173100 Rh6AG089600 Rh7AG488100 Rh7DG389600
rosa_wichuraiana Rw0G001150 Rw0G001990 Rw0G002010 Rw0G019540 Rw1G013730 Rw1G024110 Rw1G029190 Rw2G018850 Rw2G021090 Rw2G022260 Rw2G023180 Rw2G027280 Rw3G010190 Rw3G020660 Rw3G029380 Rw4G002390 Rw4G002690 Rw4G033260 Rw5G011960 Rw5G023110 Rw5G025250 Rw5G028950 Rw5G033740 Rw5G033950 Rw5G037900 Rw6G009640 Rw6G011620 Rw6G027720 Rw7G010680 Rw7G042070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 168
AccB1I GGYRCC 1 cut(s) 38
AccBSI CCGCTC 1 cut(s) 44
AccI GTMKAC 1 cut(s) 148
AciI CCGC 5 cut(s) 42, 100, 271, 334, 474
AclWI GGATC 1 cut(s) 360
AcsI RAATTY 2 cut(s) 327, 412
AcuI CTGAAG 1 cut(s) 402
AfaI GTAC 3 cut(s) 253, 318, 436
AfiI CCNNNNNNNGG 4 cut(s) 500, 512, 610, 666
AgsI TTSAA 4 cut(s) 115, 191, 258, 359
AjnI CCWGG 3 cut(s) 312, 462, 511
AleI CACNNNNGTG 1 cut(s) 606
AluBI AGCT 7 cut(s) 62, 247, 349, 539, 570, 617, 710
AluI AGCT 7 cut(s) 62, 247, 349, 539, 570, 617, 710
Alw21I GWGCWC 1 cut(s) 212
Alw26I GTCTC 1 cut(s) 89
AlwI GGATC 1 cut(s) 360
AoxI GGCC 1 cut(s) 502
ApeKI GCWGC 3 cut(s) 476, 710, 757
ApoI RAATTY 2 cut(s) 327, 412
Asp700I GAANNNNTTC 2 cut(s) 125, 415
AspS9I GGNCC 1 cut(s) 503
AsuC2I CCSGG 3 cut(s) 534, 585, 797
AsuHPI GGTGA 3 cut(s) 121, 593, 667
BanI GGYRCC 1 cut(s) 38
BanII GRGCYC 1 cut(s) 473
BbsI GAAGAC 2 cut(s) 228, 407
Bbv12I GWGCWC 1 cut(s) 212
BbvI GCAGC 3 cut(s) 463, 697, 744
BccI CCATC 2 cut(s) 16, 77
BciT130I CCWGG 3 cut(s) 314, 464, 513
BclI TGATCA 1 cut(s) 199
BcnI CCSGG 3 cut(s) 534, 585, 797
BcoDI GTCTC 1 cut(s) 89
BfaI CTAG 1 cut(s) 495
BfmI CTRYAG 2 cut(s) 137, 711
BisI GCNGC 3 cut(s) 477, 711, 758
BlsI GCNGC 3 cut(s) 478, 712, 759
BmcAI AGTACT 1 cut(s) 253
Bme1390I CCNGG 6 cut(s) 314, 464, 513, 534, 585, 797
BmgT120I GGNCC 1 cut(s) 503
BmiI GGNNCC 3 cut(s) 40, 342, 472
BmrFI CCNGG 6 cut(s) 314, 464, 513, 534, 585, 797
BmsI GCATC 1 cut(s) 6
BpiI GAAGAC 2 cut(s) 228, 407
BplI GAGNNNNNCTC 2 cut(s) 199, 231
BpmI CTGGAG 2 cut(s) 485, 495
BpuEI CTTGAG 4 cut(s) 30, 201, 307, 747
BpuMI CCSGG 3 cut(s) 534, 585, 797
BsaAI YACGTR 1 cut(s) 320
BsaI GGTCTC 1 cut(s) 89
BsaJI CCNNGG 2 cut(s) 560, 686
BsaWI WCCGGW 1 cut(s) 117
Bsc4I CCNNNNNNNGG 4 cut(s) 500, 512, 610, 666
BseBI CCWGG 3 cut(s) 314, 464, 513
BseDI CCNNGG 2 cut(s) 560, 686
BseGI GGATG 1 cut(s) 787
BseLI CCNNNNNNNGG 4 cut(s) 500, 512, 610, 666
BseMII CTCAG 1 cut(s) 262
BseXI GCAGC 3 cut(s) 463, 697, 744
BshFI GGCC 1 cut(s) 504
BshNI GGYRCC 1 cut(s) 38
BsiHKAI GWGCWC 1 cut(s) 212
BsiSI CCGG 4 cut(s) 118, 534, 585, 797
BslI CCNNNNNNNGG 4 cut(s) 500, 512, 610, 666
BsmAI GTCTC 1 cut(s) 89
BsnI GGCC 1 cut(s) 504
Bso31I GGTCTC 1 cut(s) 89
Bsp1286I GDGCHC 2 cut(s) 212, 473
Bsp143I GATC 2 cut(s) 199, 352
BspACI CCGC 5 cut(s) 42, 100, 271, 334, 474
BspANI GGCC 1 cut(s) 504
BspCNI CTCAG 1 cut(s) 261
BspLI GGNNCC 3 cut(s) 40, 342, 472
BspMAI CTGCAG 1 cut(s) 715
BspPI GGATC 1 cut(s) 360
BspT107I GGYRCC 1 cut(s) 38
BspTNI GGTCTC 1 cut(s) 89
BsrBI CCGCTC 1 cut(s) 44
BssECI CCNNGG 2 cut(s) 560, 686
BssMI GATC 2 cut(s) 199, 352
Bst2UI CCWGG 3 cut(s) 314, 464, 513
Bst4CI ACNGT 2 cut(s) 229, 439
BstAPI GCANNNNNTGC 1 cut(s) 268
BstBAI YACGTR 1 cut(s) 320
BstC8I GCNNGC 1 cut(s) 755
BstDEI CTNAG 2 cut(s) 248, 627
BstENI CCTNNNNNAGG 1 cut(s) 498
BstF5I GGATG 1 cut(s) 787
BstKTI GATC 2 cut(s) 202, 355
BstMAI GTCTC 1 cut(s) 89
BstMBI GATC 2 cut(s) 199, 352
BstMWI GCNNNNNNNGC 2 cut(s) 268, 716
BstNI CCWGG 3 cut(s) 314, 464, 513
BstSCI CCNGG 6 cut(s) 312, 462, 511, 532, 583, 795
BstSFI CTRYAG 2 cut(s) 137, 711
BstV1I GCAGC 3 cut(s) 463, 697, 744
BstV2I GAAGAC 2 cut(s) 228, 407
BstX2I RGATCY 1 cut(s) 352
BstXI CCANNNNNNTGG 1 cut(s) 320
BstYI RGATCY 1 cut(s) 352
BsuRI GGCC 1 cut(s) 504
BtsCI GGATG 1 cut(s) 787
BtsIMutI CAGTG 2 cut(s) 11, 426
Cac8I GCNNGC 1 cut(s) 755
Cfr13I GGNCC 1 cut(s) 503
CsiI ACCWGGT 1 cut(s) 312
Csp6I GTAC 3 cut(s) 252, 317, 435
CviQI GTAC 3 cut(s) 252, 317, 435
DdeI CTNAG 2 cut(s) 248, 627
DpnI GATC 2 cut(s) 201, 354
DpnII GATC 2 cut(s) 199, 352
Eco24I GRGCYC 1 cut(s) 473
Eco31I GGTCTC 1 cut(s) 89
Eco57I CTGAAG 1 cut(s) 402
EcoNI CCTNNNNNAGG 1 cut(s) 498
EcoRII CCWGG 3 cut(s) 312, 462, 511
EcoT38I GRGCYC 1 cut(s) 473
FauI CCCGC 2 cut(s) 107, 264
FbaI TGATCA 1 cut(s) 199
FblI GTMKAC 1 cut(s) 148
Fnu4HI GCNGC 3 cut(s) 477, 711, 758
FokI GGATG 1 cut(s) 774
FriOI GRGCYC 1 cut(s) 473
Fsp4HI GCNGC 3 cut(s) 477, 711, 758
FspBI CTAG 1 cut(s) 495
GluI GCNGC 3 cut(s) 477, 711, 758
GsuI CTGGAG 2 cut(s) 485, 495
HaeIII GGCC 1 cut(s) 504
HapII CCGG 4 cut(s) 118, 534, 585, 797
HinfI GANTC 6 cut(s) 4, 24, 299, 516, 775, 803
HpaII CCGG 4 cut(s) 118, 534, 585, 797
HphI GGTGA 3 cut(s) 121, 593, 667
Hpy166II GTNNAC 1 cut(s) 149
Hpy188I TCNGA 4 cut(s) 91, 304, 564, 690
Hpy188III TCNNGA 8 cut(s) 47, 55, 191, 218, 286, 296, 356, 659
Hpy8I GTNNAC 1 cut(s) 149
HpyAV CCTTC 3 cut(s) 227, 331, 583
HpyCH4III ACNGT 2 cut(s) 229, 439
HpyCH4IV ACGT 1 cut(s) 319
HpyCH4V TGCA 5 cut(s) 19, 262, 479, 713, 719
HpyF10VI GCNNNNNNNGC 2 cut(s) 268, 716
HpyF3I CTNAG 2 cut(s) 248, 627
HpySE526I ACGT 1 cut(s) 319
Ksp22I TGATCA 1 cut(s) 199
Kzo9I GATC 2 cut(s) 199, 352
LmnI GCTCC 5 cut(s) 207, 388, 476, 536, 575
Lsp1109I GCAGC 3 cut(s) 463, 697, 744
LweI GCATC 1 cut(s) 6
MabI ACCWGGT 1 cut(s) 312
MaeI CTAG 1 cut(s) 495
MaeII ACGT 1 cut(s) 319
MaeIII GTNAC 3 cut(s) 599, 620, 772
MalI GATC 2 cut(s) 201, 354
MbiI CCGCTC 1 cut(s) 44
MboI GATC 2 cut(s) 199, 352
MboII GAAGA 6 cut(s) 233, 274, 408, 412, 703, 812
MflI RGATCY 1 cut(s) 352
MhlI GDGCHC 2 cut(s) 212, 473
MluCI AATT 7 cut(s) 142, 173, 195, 327, 412, 480, 645
MlyI GAGTC 1 cut(s) 769
MnlI CCTC 6 cut(s) 162, 460, 519, 570, 696, 771
MroXI GAANNNNTTC 2 cut(s) 125, 415
MseI TTAA 2 cut(s) 459, 699
MslI CAYNNNNRTG 1 cut(s) 606
MspA1I CMGCKG 1 cut(s) 476
MspI CCGG 4 cut(s) 118, 534, 585, 797
MspR9I CCNGG 6 cut(s) 314, 464, 513, 534, 585, 797
MvaI CCWGG 3 cut(s) 314, 464, 513
MwoI GCNNNNNNNGC 2 cut(s) 268, 716
NciI CCSGG 3 cut(s) 534, 585, 797
NdeII GATC 2 cut(s) 199, 352
NlaIV GGNNCC 3 cut(s) 40, 342, 472
NmuCI GTSAC 3 cut(s) 599, 620, 772
OliI CACNNNNGTG 1 cut(s) 606
PdmI GAANNNNTTC 2 cut(s) 125, 415
PfeI GAWTC 5 cut(s) 4, 24, 299, 516, 803
PfoI TCCNGGA 1 cut(s) 511
PkrI GCNGC 3 cut(s) 478, 712, 759
PleI GAGTC 1 cut(s) 769
PpsI GAGTC 1 cut(s) 769
Ppu21I YACGTR 1 cut(s) 320
PsiI TTATAA 1 cut(s) 168
Psp6I CCWGG 3 cut(s) 312, 462, 511
PspGI CCWGG 3 cut(s) 312, 462, 511
PspN4I GGNNCC 3 cut(s) 40, 342, 472
PspPI GGNCC 1 cut(s) 503
PstI CTGCAG 1 cut(s) 715
PsuI RGATCY 1 cut(s) 352
RsaI GTAC 3 cut(s) 253, 318, 436
RsaNI GTAC 3 cut(s) 252, 317, 435
RseI CAYNNNNRTG 1 cut(s) 606
SaqAI TTAA 2 cut(s) 459, 699
SatI GCNGC 3 cut(s) 477, 711, 758
Sau3AI GATC 2 cut(s) 199, 352
Sau96I GGNCC 1 cut(s) 503
ScaI AGTACT 1 cut(s) 253
SchI GAGTC 1 cut(s) 769
ScrFI CCNGG 6 cut(s) 314, 464, 513, 534, 585, 797
SduI GDGCHC 2 cut(s) 212, 473
SexAI ACCWGGT 1 cut(s) 312
SfaNI GCATC 1 cut(s) 6
SfcI CTRYAG 2 cut(s) 137, 711
SmiMI CAYNNNNRTG 1 cut(s) 606
SmlI CTYRAG 4 cut(s) 45, 216, 286, 762
SmoI CTYRAG 4 cut(s) 45, 216, 286, 762
Sse9I AATT 7 cut(s) 142, 173, 195, 327, 412, 480, 645
SsiI CCGC 5 cut(s) 42, 100, 271, 334, 474
SspMI CTAG 1 cut(s) 495
StyD4I CCNGG 6 cut(s) 312, 462, 511, 532, 583, 795
TaaI ACNGT 2 cut(s) 229, 439
TaiI ACGT 1 cut(s) 322
TasI AATT 7 cut(s) 142, 173, 195, 327, 412, 480, 645
TatI WGTACW 2 cut(s) 251, 434
TfiI GAWTC 5 cut(s) 4, 24, 299, 516, 803
Tru1I TTAA 2 cut(s) 459, 699
Tru9I TTAA 2 cut(s) 459, 699
TscAI CASTG 2 cut(s) 18, 426
TseFI GTSAC 3 cut(s) 599, 620, 772
TseI GCWGC 3 cut(s) 476, 710, 757
Tsp45I GTSAC 3 cut(s) 599, 620, 772
TspDTI ATGAA 5 cut(s) 16, 186, 266, 565, 657
TspGWI ACGGA 1 cut(s) 740
TspRI CASTG 2 cut(s) 18, 426
XagI CCTNNNNNAGG 1 cut(s) 498
XapI RAATTY 2 cut(s) 327, 412
XmiI GTMKAC 1 cut(s) 148
XmnI GAANNNNTTC 2 cut(s) 125, 415
XspI CTAG 1 cut(s) 495
ZrmI AGTACT 1 cut(s) 253
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.