Rw2G046370

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0000094
Physical Location & Seq
Reverse (-)
73639160 .. 73639747
588 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G046370.1

Sequence Viewer

Length: 588 bp
ATGGAATTGATTGAAGATTATGATTGTACCATTGAGTACCACCCCGGTAAAGCGAATGTGGTGGCGGATGCACTTAGTAGGAACCCATCCGTAACCTTGTCATATTTAAGGGCCACTCGAGTACTCCTATTGTCAGAGTTGAGGTCTACGGGGGTTGAGTTATCGGTTGATGAGGTTGGTACTATGGTGGCTAGTTTTCATGTGAGACCAGCATTCATTGATAAAATACGGGAAGCCCAGCCTCTTAATCCAAGAATTGAAGGGATTAAAGAAGGTGTTCGTGGTGGTTGGCAACTTGAGTTTTATATTCGAAGAGATGGGACATTGATGTTTGGGAAGAGACTTTGTGTTCCTAACGTCGAAGCACTTAAACGAGAAATACTTGATGAAGCTCATAACTCCGCGTATGCCCTGCATCCTGGTGGTACAAAAATGTATCGGACTCTCAAAGAGTACTATTGGTGGCCAAACAAGAAAAGAGAAATTGCAGCTTTTGTGAGTAAATGCCTTGTGTGCCAGCAAGTGAAAGCGGAAAGGCAAAAACCGTTGGGGTTGTTGCAACCTTTGCCAATTCCGGAATGGAAATGA
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
RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

195

Amino Acids

22.3

Weight (kDa)

8.84

Isoelectric Point (pI)

48.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Integrase_H2C2 PF17921 121 - 177 3.3e-18 Integrase zinc 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000094)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42190
fragaria_vesca FvH4_1g22371 FvH4_1g23261 FvH4_1g27933 FvH4_1g27934 FvH4_1g29231 FvH4_2g02781 FvH4_2g08031 FvH4_2g08581 FvH4_3g06961 FvH4_3g06962 FvH4_3g13531 FvH4_3g14391 FvH4_3g14392 FvH4_3g18622 FvH4_3g18964 FvH4_3g26314 FvH4_3g28781 FvH4_3g30771 FvH4_3g30772 FvH4_3g31752 FvH4_3g32803 FvH4_3g35751 FvH4_3g35752 FvH4_4g02151 FvH4_4g02642 FvH4_4g05523 FvH4_4g05524 FvH4_4g06574 FvH4_4g06722 FvH4_4g08644 FvH4_4g08645 FvH4_4g08646 FvH4_4g08851 FvH4_4g08971 FvH4_4g09081 FvH4_4g09243 FvH4_4g09244 FvH4_4g09283 FvH4_4g10021 FvH4_4g10032 FvH4_4g10033 FvH4_4g10182 FvH4_4g10361 FvH4_4g12502 FvH4_4g12503 FvH4_4g13341 FvH4_4g13942 FvH4_4g13943 FvH4_4g13944 FvH4_4g14432 FvH4_4g14822 FvH4_4g14823 FvH4_4g15291 FvH4_4g15292 FvH4_4g15293 FvH4_4g15471 FvH4_4g15583 FvH4_4g15584 FvH4_4g15585 FvH4_4g15586 FvH4_4g15587 FvH4_4g15591 FvH4_4g15592 FvH4_4g15593 FvH4_4g16179 FvH4_4g18131 FvH4_4g21031 FvH4_4g22021 FvH4_4g22021 FvH4_4g22042 FvH4_5g03402 FvH4_5g07411 FvH4_5g13881 FvH4_5g15792 FvH4_5g24682 FvH4_5g24911 FvH4_5g25322 FvH4_5g25641 FvH4_5g36692 FvH4_5g38072 FvH4_5g38171 FvH4_6g05202 FvH4_6g08531 FvH4_6g16342 FvH4_6g21771 FvH4_6g23303 FvH4_6g23961 FvH4_6g25381 FvH4_6g27021 FvH4_6g27022 FvH4_6g30091 FvH4_6g30092 FvH4_7g02051 FvH4_7g06031 FvH4_7g07031 FvH4_7g07581 FvH4_7g08381 FvH4_7g11551 FvH4_7g19711 FvH4_7g25621 FvH4_7g29722
malus_domestica MD06G1134500.v1.1 MD09G1067600.v1.1 MD13G1145500.v1.1 MD15G1166500.v1.1 MD16G1270000.v1.1
prunus_persica Prupe.7G030900_v2.0.a1
pyrus_communis pycom01g00710 pycom01g03760 pycom03g10770 pycom04g02180 pycom05g08050 pycom06g04140 pycom06g11110 pycom07g07550 pycom07g21570 pycom08g17240 pycom09g13900 pycom09g19570 pycom10g22300 pycom11g03210 pycom11g13750 pycom11g24890 pycom12561g00270 pycom12668g00020 pycom12g11280 pycom12g20720 pycom12g20730 pycom13g21410 pycom13g21660 pycom14g06010 pycom14g06370 pycom14g12800 pycom16g21440 pycom16g22530 pycom17g02030 pycom420g00170 pycom50g00020 pycom5153684g00110 pycom520g00860 pycom581g00060
rosa_chinensis RchiOBHm_Chr0c08g0498091 RchiOBHm_Chr0c08g0498101 RchiOBHm_Chr1g0326991 RchiOBHm_Chr2g0084311 RchiOBHm_Chr2g0090701 RchiOBHm_Chr2g0098591 RchiOBHm_Chr2g0109491 RchiOBHm_Chr2g0109501 RchiOBHm_Chr2g0130801 RchiOBHm_Chr2g0145931 RchiOBHm_Chr2g0168091 RchiOBHm_Chr3g0457081 RchiOBHm_Chr3g0457091 RchiOBHm_Chr3g0467781 RchiOBHm_Chr3g0467791 RchiOBHm_Chr3g0493771 RchiOBHm_Chr3g0494051 RchiOBHm_Chr3g0496881 RchiOBHm_Chr4g0401391 RchiOBHm_Chr4g0414861 RchiOBHm_Chr4g0424081 RchiOBHm_Chr5g0009611 RchiOBHm_Chr5g0049881 RchiOBHm_Chr5g0050351 RchiOBHm_Chr5g0053791 RchiOBHm_Chr5g0078031 RchiOBHm_Chr6g0256481 RchiOBHm_Chr6g0271231 RchiOBHm_Chr6g0286381 RchiOBHm_Chr7g0197101 RchiOBHm_Chr7g0221891 RchiOBHm_Chr7g0237801 RchiOBHm_Chr7g0237821
rosa_multiflora Rmu_sc0000509.1_g000034 Rmu_sc0004751.1_g000014 Rmu_sc0008546.1_g000002 Rmu_sc0009320.1_g000003 Rmu_sc0010661.1_g000006 Rmu_sc0029652.1_g000002
rosa_roxburghii Rroxscaffold_10G00433150 Rroxscaffold_15G00447630 Rroxscaffold_26G00447790 Rroxscaffold_29G00441810 Rroxscaffold_32G00442860 Rroxscaffold_33G00439800 Rroxscaffold_34G00443230 Rroxscaffold_3G00220560 Rroxscaffold_3G00227370 Rroxscaffold_3G00239080 Rroxscaffold_3G00239090 Rroxscaffold_3G00273190 Rroxscaffold_4G00323530 Rroxscaffold_4G00326840 Rroxscaffold_57G00443110 Rroxscaffold_5G00338590 Rroxscaffold_5G00347530 Rroxscaffold_68G00446990 Rroxscaffold_76G00448570 Rroxscaffold_90G00448860
rosa_rugosa Rorug06G0233600
rosa_samantha Rh3CG302700 Rh6DG286700
rosa_wichuraiana Rw0G002280 Rw0G004080 Rw0G011830 Rw1G003690 Rw1G008800 Rw1G009130 Rw1G009140 Rw1G009150 Rw1G009160 Rw1G009410 Rw1G009580 Rw1G012770 Rw1G015850 Rw1G026860 Rw2G003780 Rw2G006480 Rw2G016520 Rw2G016960 Rw2G018170 Rw2G025180 Rw2G025510 Rw2G025610 Rw2G025750 Rw2G025920 Rw2G029950 Rw2G046360 Rw2G046370 Rw2G046380 Rw3G009070 Rw3G025820 Rw3G027340 Rw3G027900 Rw3G028150 Rw3G029060 Rw4G002440 Rw4G005960 Rw4G007520 Rw4G011970 Rw4G011980 Rw4G012190 Rw4G012530 Rw4G018490 Rw4G026380 Rw5G003970 Rw5G030920 Rw5G031780 Rw5G031900 Rw5G033030 Rw5G033040 Rw5G036330 Rw5G039730 Rw5G048110 Rw6G006670 Rw6G007910 Rw6G009720 Rw6G010990 Rw6G012930 Rw6G012940 Rw6G013420 Rw6G014690 Rw6G015290 Rw6G015790 Rw6G015920 Rw6G036510 Rw7G016650 Rw7G023140 Rw7G028650 Rw7G036450 Rw7G036460 Rw7G036910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 146
AccII CGCG 1 cut(s) 404
AccIII TCCGGA 1 cut(s) 574
AciI CCGC 3 cut(s) 65, 402, 530
AcoI YGGCCR 1 cut(s) 464
AfaI GTAC 6 cut(s) 28, 38, 123, 181, 427, 455
AgsI TTSAA 2 cut(s) 14, 260
AjnI CCWGG 1 cut(s) 418
AluBI AGCT 2 cut(s) 392, 491
AluI AGCT 2 cut(s) 392, 491
Alw26I GTCTC 2 cut(s) 199, 334
Ama87I CYCGRG 1 cut(s) 117
Aor13HI TCCGGA 1 cut(s) 574
AoxI GGCC 2 cut(s) 111, 464
ApeKI GCWGC 1 cut(s) 488
Asp700I GAANNNNTTC 1 cut(s) 276
AspS9I GGNCC 1 cut(s) 111
AsuC2I CCSGG 1 cut(s) 45
AsuII TTCGAA 1 cut(s) 310
AvaI CYCGRG 1 cut(s) 117
BaeI ACNNNNGTAYC 2 cut(s) 171, 204
BalI TGGCCA 1 cut(s) 466
BbvI GCAGC 1 cut(s) 500
BccI CCATC 2 cut(s) 94, 311
BciT130I CCWGG 1 cut(s) 420
BcnI CCSGG 1 cut(s) 45
BcoDI GTCTC 2 cut(s) 199, 334
BfaI CTAG 1 cut(s) 192
BisI GCNGC 1 cut(s) 489
BlsI GCNGC 1 cut(s) 490
BmcAI AGTACT 2 cut(s) 123, 455
Bme1390I CCNGG 2 cut(s) 45, 420
BmeT110I CYCGRG 1 cut(s) 117
BmgT120I GGNCC 1 cut(s) 111
BmiI GGNNCC 1 cut(s) 83
BmrFI CCNGG 2 cut(s) 45, 420
BmsI GCATC 2 cut(s) 58, 424
Bpu14I TTCGAA 1 cut(s) 310
BpuEI CTTGAG 1 cut(s) 317
BpuMI CCSGG 1 cut(s) 45
BsaI GGTCTC 1 cut(s) 199
BsaJI CCNNGG 1 cut(s) 43
BsaWI WCCGGW 1 cut(s) 574
BseAI TCCGGA 1 cut(s) 574
BseBI CCWGG 1 cut(s) 420
BseDI CCNNGG 1 cut(s) 43
BseGI GGATG 3 cut(s) 73, 86, 415
BseXI GCAGC 1 cut(s) 500
BseYI CCCAGC 1 cut(s) 237
Bsh1236I CGCG 1 cut(s) 404
BshFI GGCC 2 cut(s) 113, 466
BsiHKCI CYCGRG 1 cut(s) 117
BsiSI CCGG 2 cut(s) 45, 575
BslFI GGGAC 1 cut(s) 334
BsmAI GTCTC 2 cut(s) 199, 334
BsmFI GGGAC 1 cut(s) 334
BsmI GAATGC 1 cut(s) 212
BsnI GGCC 2 cut(s) 113, 466
Bso31I GGTCTC 1 cut(s) 199
BsoBI CYCGRG 1 cut(s) 117
Bsp119I TTCGAA 1 cut(s) 310
Bsp13I TCCGGA 1 cut(s) 574
BspACI CCGC 3 cut(s) 65, 402, 530
BspANI GGCC 2 cut(s) 113, 466
BspEI TCCGGA 1 cut(s) 574
BspFNI CGCG 1 cut(s) 404
BspLI GGNNCC 1 cut(s) 83
BspT104I TTCGAA 1 cut(s) 310
BspTNI GGTCTC 1 cut(s) 199
BssECI CCNNGG 1 cut(s) 43
Bst2UI CCWGG 1 cut(s) 420
Bst4CI ACNGT 1 cut(s) 546
Bst6I CTCTTC 2 cut(s) 307, 332
BstAPI GCANNNNNTGC 1 cut(s) 565
BstBI TTCGAA 1 cut(s) 310
BstC8I GCNNGC 1 cut(s) 518
BstDEI CTNAG 1 cut(s) 74
BstF5I GGATG 3 cut(s) 73, 86, 415
BstFNI CGCG 1 cut(s) 404
BstMAI GTCTC 2 cut(s) 199, 334
BstMWI GCNNNNNNNGC 2 cut(s) 513, 565
BstNI CCWGG 1 cut(s) 420
BstSCI CCNGG 2 cut(s) 43, 418
BstUI CGCG 1 cut(s) 404
BstV1I GCAGC 1 cut(s) 500
BsuRI GGCC 2 cut(s) 113, 466
BtsCI GGATG 3 cut(s) 73, 86, 415
Cac8I GCNNGC 1 cut(s) 518
Cfr13I GGNCC 1 cut(s) 111
Csp6I GTAC 6 cut(s) 27, 37, 122, 180, 426, 454
CviAII CATG 1 cut(s) 200
CviJI RGCY 7 cut(s) 113, 191, 236, 241, 392, 466, 491
CviKI_1 RGCY 7 cut(s) 113, 191, 236, 241, 392, 466, 491
CviQI GTAC 6 cut(s) 27, 37, 122, 180, 426, 454
DdeI CTNAG 1 cut(s) 74
EaeI YGGCCR 1 cut(s) 464
Eam1104I CTCTTC 2 cut(s) 307, 332
EarI CTCTTC 2 cut(s) 307, 332
EciI GGCGGA 1 cut(s) 80
Eco31I GGTCTC 1 cut(s) 199
Eco88I CYCGRG 1 cut(s) 117
EcoRII CCWGG 1 cut(s) 418
FaeI CATG 1 cut(s) 203
FaiI YATR 7 cut(s) 21, 103, 185, 201, 306, 396, 408
FaqI GGGAC 1 cut(s) 334
FatI CATG 1 cut(s) 199
FblI GTMKAC 1 cut(s) 146
Fnu4HI GCNGC 1 cut(s) 489
FokI GGATG 3 cut(s) 73, 80, 402
Fsp4HI GCNGC 1 cut(s) 489
FspBI CTAG 1 cut(s) 192
GluI GCNGC 1 cut(s) 489
GsaI CCCAGC 1 cut(s) 241
HaeIII GGCC 2 cut(s) 113, 466
HapII CCGG 2 cut(s) 45, 575
Hin1II CATG 1 cut(s) 203
HinfI GANTC 1 cut(s) 442
HpaII CCGG 2 cut(s) 45, 575
Hpy166II GTNNAC 1 cut(s) 147
Hpy188I TCNGA 2 cut(s) 136, 441
Hpy188III TCNNGA 1 cut(s) 575
Hpy8I GTNNAC 1 cut(s) 147
Hpy99I CGWCG 1 cut(s) 362
HpyAV CCTTC 2 cut(s) 254, 266
HpyCH4III ACNGT 1 cut(s) 546
HpyCH4IV ACGT 1 cut(s) 357
HpyCH4V TGCA 4 cut(s) 71, 415, 488, 559
HpyF10VI GCNNNNNNNGC 2 cut(s) 513, 565
HpyF3I CTNAG 1 cut(s) 74
HpySE526I ACGT 1 cut(s) 357
Hsp92II CATG 1 cut(s) 203
Kpn2I TCCGGA 1 cut(s) 574
LpnPI CCDG 7 cut(s) 58, 222, 251, 405, 425, 432, 530
Lsp1109I GCAGC 1 cut(s) 500
LweI GCATC 2 cut(s) 58, 424
MaeI CTAG 1 cut(s) 192
MaeII ACGT 1 cut(s) 357
MaeIII GTNAC 1 cut(s) 91
MboII GAAGA 3 cut(s) 26, 324, 349
MlsI TGGCCA 1 cut(s) 466
MluCI AATT 4 cut(s) 5, 255, 483, 570
MluNI TGGCCA 1 cut(s) 466
MlyI GAGTC 1 cut(s) 436
MnlI CCTC 3 cut(s) 135, 166, 252
Mox20I TGGCCA 1 cut(s) 466
MroI TCCGGA 1 cut(s) 574
MroXI GAANNNNTTC 1 cut(s) 276
MscI TGGCCA 1 cut(s) 466
MseI TTAA 4 cut(s) 107, 246, 267, 369
MslI CAYNNNNRTG 1 cut(s) 420
Msp20I TGGCCA 1 cut(s) 466
MspI CCGG 2 cut(s) 45, 575
MspR9I CCNGG 2 cut(s) 45, 420
Mva1269I GAATGC 1 cut(s) 212
MvaI CCWGG 1 cut(s) 420
MvnI CGCG 1 cut(s) 404
MwoI GCNNNNNNNGC 2 cut(s) 513, 565
NciI CCSGG 1 cut(s) 45
NlaIII CATG 1 cut(s) 203
NlaIV GGNNCC 1 cut(s) 83
NspV TTCGAA 1 cut(s) 310
PaeR7I CTCGAG 1 cut(s) 117
PctI GAATGC 1 cut(s) 212
PdmI GAANNNNTTC 1 cut(s) 276
PkrI GCNGC 1 cut(s) 490
PleI GAGTC 1 cut(s) 436
PpsI GAGTC 1 cut(s) 436
Psp6I CCWGG 1 cut(s) 418
PspFI CCCAGC 1 cut(s) 237
PspGI CCWGG 1 cut(s) 418
PspN4I GGNNCC 1 cut(s) 83
PspPI GGNCC 1 cut(s) 111
PspXI VCTCGAGB 1 cut(s) 117
RsaI GTAC 6 cut(s) 28, 38, 123, 181, 427, 455
RsaNI GTAC 6 cut(s) 27, 37, 122, 180, 426, 454
RseI CAYNNNNRTG 1 cut(s) 420
SaqAI TTAA 4 cut(s) 107, 246, 267, 369
SatI GCNGC 1 cut(s) 489
Sau96I GGNCC 1 cut(s) 111
ScaI AGTACT 2 cut(s) 123, 455
SchI GAGTC 1 cut(s) 436
ScrFI CCNGG 2 cut(s) 45, 420
SetI ASST 8 cut(s) 98, 146, 177, 277, 360, 394, 493, 565
SfaNI GCATC 2 cut(s) 58, 424
Sfr274I CTCGAG 1 cut(s) 117
SfuI TTCGAA 1 cut(s) 310
SlaI CTCGAG 1 cut(s) 117
SmiMI CAYNNNNRTG 1 cut(s) 420
SmlI CTYRAG 2 cut(s) 117, 296
SmoI CTYRAG 2 cut(s) 117, 296
Sse9I AATT 4 cut(s) 5, 255, 483, 570
SsiI CCGC 3 cut(s) 65, 402, 530
SspMI CTAG 1 cut(s) 192
StyD4I CCNGG 2 cut(s) 43, 418
TaaI ACNGT 1 cut(s) 546
TaiI ACGT 1 cut(s) 360
TaqI TCGA 3 cut(s) 118, 310, 360
TasI AATT 4 cut(s) 5, 255, 483, 570
TatI WGTACW 2 cut(s) 121, 453
Tru1I TTAA 4 cut(s) 107, 246, 267, 369
Tru9I TTAA 4 cut(s) 107, 246, 267, 369
TseI GCWGC 1 cut(s) 488
TspDTI ATGAA 3 cut(s) 188, 205, 402
TspGWI ACGGA 1 cut(s) 79
XcmI CCANNNNNNNNNTGG 1 cut(s) 576
XhoI CTCGAG 1 cut(s) 117
XmiI GTMKAC 1 cut(s) 146
XmnI GAANNNNTTC 1 cut(s) 276
XspI CTAG 1 cut(s) 192
ZrmI AGTACT 2 cut(s) 123, 455
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.