Rorug06G0120700

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000146
Physical Location & Seq
Reverse (-)
16572596 .. 16576599
4004 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0120700.1

Sequence Viewer

Length: 621 bp
ATGCCGTCTCGGAGAAGAACGCTCCTCAAGGTCATCATCCTCGGCGACAGCGGGGTTGGGAAGACTTCTTTGATGAATCAATATGTTAATAAGAAGTTCAGCAATCAATACAAGGCGACTATTGGAGCCGATTTCTTGACGAAAGAAGTGCAGTTCGAAGATAGGCTCTTCACCTTACAGATCTGGGATACCGCTGGTCAAGAACGGTTTCAGAGCCTTGGTGTAGCATTTTATCGCGGTGCTGATTGCTGTGTTCTTGTTTATGACGTTAATTCGATGAAATCTTTTGATAACCTTAACAACTGGAAGGAAGAATTCCTTATTCAGGCTAGTCCTAATGACCCAGAAAACTTTCCATTTGTTGTTATTGGAAACAAGATTGATGTAGATGGTGGAAATAGTAGAGTGGTGTCGGAGAAAAAGGCTCGAGCTTGGTGTGCATCAAAAGGAGATATTCCGTACTATGAAACATCTGCCAAGGAAGGCATTAATGTGGAAGAAGCTTTCCAGTGCATAGCAAGGGATGCTCTGAAGAGTGGAGAAGAGGAGGAGATATACTTGCCGGATACCATTGATGTTGGAAGCAGCAGTCAGCCAAGGTCGAGTGGATGCGAGTGTTAA
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

206

Amino Acids

23.06

Weight (kDa)

4.9

Isoelectric Point (pI)

43.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Arf PF00025 9 - 173 6.2e-13 ADP-ribosylation factor family
Ras PF00071 10 - 177 2.3e-56 Ras family
Roc PF08477 10 - 128 9e-34 Ras of Complex, Roc, domain of DAPkinase
MMR_HSR1 PF01926 10 - 106 1.8e-07 50S ribosome-binding GTPase
Gtr1_RagA PF04670 10 - 129 3.3e-06 Gtr1/RagA G protein conserved region
GTP_EFTU PF00009 46 - 172 1.5e-06 Elongation factor Tu GTP binding domain
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)
AccII CGCG 1 cut(s) 237
AciI CCGC 3 cut(s) 51, 192, 237
AcsI RAATTY 1 cut(s) 314
AcuI CTGAAG 1 cut(s) 551
AfaI GTAC 1 cut(s) 461
AfiI CCNNNNNNNGG 1 cut(s) 325
AluBI AGCT 2 cut(s) 431, 503
AluI AGCT 2 cut(s) 431, 503
Alw26I GTCTC 1 cut(s) 12
Ama87I CYCGRG 1 cut(s) 426
ApeKI GCWGC 1 cut(s) 585
ApoI RAATTY 1 cut(s) 314
AseI ATTAAT 1 cut(s) 489
Asp700I GAANNNNTTC 2 cut(s) 207, 351
AsuHPI GGTGA 1 cut(s) 163
AsuII TTCGAA 1 cut(s) 156
AvaI CYCGRG 1 cut(s) 426
BbsI GAAGAC 1 cut(s) 68
BbvI GCAGC 1 cut(s) 597
BccI CCATC 1 cut(s) 383
BcgI CGANNNNNNTGC 2 cut(s) 130, 164
BciVI GTATCC 2 cut(s) 181, 559
BcoDI GTCTC 1 cut(s) 12
BfaI CTAG 1 cut(s) 330
BfuI GTATCC 2 cut(s) 181, 559
BglII AGATCT 1 cut(s) 180
BisI GCNGC 1 cut(s) 586
BlsI GCNGC 1 cut(s) 587
BmeT110I CYCGRG 1 cut(s) 426
BmiI GGNNCC 1 cut(s) 127
BmsI GCATC 3 cut(s) 449, 514, 599
BpiI GAAGAC 1 cut(s) 68
Bpu14I TTCGAA 1 cut(s) 156
BpuEI CTTGAG 1 cut(s) 11
BsaJI CCNNGG 4 cut(s) 40, 217, 477, 596
Bsc4I CCNNNNNNNGG 1 cut(s) 325
Bse1I ACTGG 2 cut(s) 308, 508
BseDI CCNNGG 4 cut(s) 40, 217, 477, 596
BseGI GGATG 3 cut(s) 36, 529, 614
BseLI CCNNNNNNNGG 1 cut(s) 325
BseNI ACTGG 2 cut(s) 308, 508
BseRI GAGGAG 3 cut(s) 14, 560, 563
BseXI GCAGC 1 cut(s) 597
BsgI GTGCAG 1 cut(s) 170
Bsh1236I CGCG 1 cut(s) 237
BsiHKCI CYCGRG 1 cut(s) 426
BsiSI CCGG 1 cut(s) 563
BslI CCNNNNNNNGG 1 cut(s) 325
BsmAI GTCTC 1 cut(s) 12
BsmBI CGTCTC 1 cut(s) 12
BsoBI CYCGRG 1 cut(s) 426
Bsp119I TTCGAA 1 cut(s) 156
Bsp143I GATC 1 cut(s) 180
BspACI CCGC 3 cut(s) 51, 192, 237
BspFNI CGCG 1 cut(s) 237
BspLI GGNNCC 1 cut(s) 127
BspQI GCTCTTC 1 cut(s) 173
BspT104I TTCGAA 1 cut(s) 156
BsrI ACTGG 2 cut(s) 308, 508
BssECI CCNNGG 4 cut(s) 40, 217, 477, 596
BssMI GATC 1 cut(s) 180
BssT1I CCWWGG 3 cut(s) 217, 477, 596
Bst4CI ACNGT 1 cut(s) 207
Bst6I CTCTTC 3 cut(s) 173, 527, 537
BstAPI GCANNNNNTGC 1 cut(s) 524
BstBI TTCGAA 1 cut(s) 156
BstENI CCTNNNNNAGG 1 cut(s) 323
BstF5I GGATG 3 cut(s) 36, 529, 614
BstFNI CGCG 1 cut(s) 237
BstKTI GATC 1 cut(s) 183
BstMAI GTCTC 1 cut(s) 12
BstMBI GATC 1 cut(s) 180
BstMWI GCNNNNNNNGC 2 cut(s) 437, 524
BstUI CGCG 1 cut(s) 237
BstV1I GCAGC 1 cut(s) 597
BstV2I GAAGAC 1 cut(s) 68
BstX2I RGATCY 1 cut(s) 180
BstYI RGATCY 1 cut(s) 180
BsuI GTATCC 2 cut(s) 181, 559
BtsCI GGATG 3 cut(s) 36, 529, 614
BtsIMutI CAGTG 1 cut(s) 515
Csp6I GTAC 1 cut(s) 460
CviJI RGCY 8 cut(s) 128, 166, 216, 329, 425, 431, 503, 595
CviKI_1 RGCY 8 cut(s) 128, 166, 216, 329, 425, 431, 503, 595
CviQI GTAC 1 cut(s) 460
DpnI GATC 1 cut(s) 182
DpnII GATC 1 cut(s) 180
Eam1104I CTCTTC 3 cut(s) 173, 527, 537
EarI CTCTTC 3 cut(s) 173, 527, 537
Eco130I CCWWGG 3 cut(s) 217, 477, 596
Eco57I CTGAAG 1 cut(s) 551
Eco88I CYCGRG 1 cut(s) 426
EcoNI CCTNNNNNAGG 1 cut(s) 323
EcoRI GAATTC 1 cut(s) 314
EcoT14I CCWWGG 3 cut(s) 217, 477, 596
ErhI CCWWGG 3 cut(s) 217, 477, 596
Esp3I CGTCTC 1 cut(s) 12
FaiI YATR 5 cut(s) 84, 264, 465, 515, 556
FalI AAGNNNNNCTT 2 cut(s) 303, 335
FauI CCCGC 1 cut(s) 44
Fnu4HI GCNGC 1 cut(s) 586
FokI GGATG 2 cut(s) 23, 536
Fsp4HI GCNGC 1 cut(s) 586
FspBI CTAG 1 cut(s) 330
GluI GCNGC 1 cut(s) 586
HapII CCGG 1 cut(s) 563
HindIII AAGCTT 1 cut(s) 501
HinfI GANTC 1 cut(s) 76
HpaII CCGG 1 cut(s) 563
HphI GGTGA 1 cut(s) 163
Hpy188I TCNGA 4 cut(s) 12, 213, 415, 531
Hpy188III TCNNGA 2 cut(s) 136, 200
HpyAV CCTTC 2 cut(s) 301, 476
HpyCH4III ACNGT 1 cut(s) 207
HpyCH4IV ACGT 1 cut(s) 267
HpyCH4V TGCA 3 cut(s) 151, 440, 513
HpyF10VI GCNNNNNNNGC 2 cut(s) 437, 524
HpySE526I ACGT 1 cut(s) 267
Kzo9I GATC 1 cut(s) 180
LguI GCTCTTC 1 cut(s) 173
LmnI GCTCC 2 cut(s) 27, 125
LpnPI CCDG 7 cut(s) 169, 180, 289, 311, 357, 521, 576
Lsp1109I GCAGC 1 cut(s) 597
LweI GCATC 3 cut(s) 449, 514, 599
MaeI CTAG 1 cut(s) 330
MaeII ACGT 1 cut(s) 267
MalI GATC 1 cut(s) 182
MboI GATC 1 cut(s) 180
MboII GAAGA 8 cut(s) 27, 73, 160, 170, 323, 509, 544, 554
MflI RGATCY 1 cut(s) 180
MluCI AATT 2 cut(s) 271, 314
MmeI TCCRAC 2 cut(s) 393, 559
MnlI CCTC 4 cut(s) 35, 50, 538, 541
MroXI GAANNNNTTC 2 cut(s) 207, 351
MseI TTAA 5 cut(s) 87, 270, 297, 489, 619
MslI CAYNNNNRTG 1 cut(s) 491
MspA1I CMGCKG 2 cut(s) 51, 194
MspI CCGG 1 cut(s) 563
MvnI CGCG 1 cut(s) 237
MwoI GCNNNNNNNGC 2 cut(s) 437, 524
NdeII GATC 1 cut(s) 180
NlaIV GGNNCC 1 cut(s) 127
NmeAIII GCCGAG 1 cut(s) 21
NspV TTCGAA 1 cut(s) 156
PaeR7I CTCGAG 1 cut(s) 426
PciSI GCTCTTC 1 cut(s) 173
PdmI GAANNNNTTC 2 cut(s) 207, 351
PfeI GAWTC 1 cut(s) 76
PkrI GCNGC 1 cut(s) 587
PshBI ATTAAT 1 cut(s) 489
PspN4I GGNNCC 1 cut(s) 127
PspXI VCTCGAGB 1 cut(s) 426
PsuI RGATCY 1 cut(s) 180
RsaI GTAC 1 cut(s) 461
RsaNI GTAC 1 cut(s) 460
RseI CAYNNNNRTG 1 cut(s) 491
SapI GCTCTTC 1 cut(s) 173
SaqAI TTAA 5 cut(s) 87, 270, 297, 489, 619
SatI GCNGC 1 cut(s) 586
Sau3AI GATC 1 cut(s) 180
SetI ASST 7 cut(s) 33, 176, 270, 297, 433, 505, 602
SfaNI GCATC 3 cut(s) 449, 514, 599
Sfr274I CTCGAG 1 cut(s) 426
SfuI TTCGAA 1 cut(s) 156
SlaI CTCGAG 1 cut(s) 426
SmiMI CAYNNNNRTG 1 cut(s) 491
SmlI CTYRAG 2 cut(s) 26, 426
SmoI CTYRAG 2 cut(s) 26, 426
Sse9I AATT 2 cut(s) 271, 314
SsiI CCGC 3 cut(s) 51, 192, 237
SspMI CTAG 1 cut(s) 330
StyI CCWWGG 3 cut(s) 217, 477, 596
TaaI ACNGT 1 cut(s) 207
TaiI ACGT 1 cut(s) 270
TaqI TCGA 4 cut(s) 156, 275, 427, 602
TasI AATT 2 cut(s) 271, 314
TfiI GAWTC 1 cut(s) 76
Tru1I TTAA 5 cut(s) 87, 270, 297, 489, 619
Tru9I TTAA 5 cut(s) 87, 270, 297, 489, 619
TscAI CASTG 1 cut(s) 515
TseI GCWGC 1 cut(s) 585
TspDTI ATGAA 3 cut(s) 89, 293, 480
TspGWI ACGGA 1 cut(s) 447
TspRI CASTG 1 cut(s) 515
VspI ATTAAT 1 cut(s) 489
XagI CCTNNNNNAGG 1 cut(s) 323
XapI RAATTY 1 cut(s) 314
XhoI CTCGAG 1 cut(s) 426
XmnI GAANNNNTTC 2 cut(s) 207, 351
XspI CTAG 1 cut(s) 330
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.