Rw3G026850

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000562
Physical Location & Seq
Forward (+)
37148289 .. 37149292
1004 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G026850.1

Sequence Viewer

Length: 633 bp
ATGTGGAATGAGCTGGATGTTTATAGACCTCATACCACCGAGGCTAGGGTTTTGTTAAAGAGAGCTGAGGAGGACAAGATTTTTCAACTCCTCGCAAGCTTAAGCTCAGATTATGAAGACTTGAGGAGTCACATTCTTATGAATGCTAAGCTACCATCTTTCAACAATGTGTGTCCTACCATTCAAAGGGAAGAGGTTCGAAAAAAGGTGATGAATATGGAGACCAAGACAAGTGTATCTGAAACTAGAGCTTATGTCTCTAATCACAGGCAAGCTGAAGCTAAAGTGTACAAAGGCAGGAGACCAGACTTGAAGTGCAGCTACTGTGAGGGTGTTAGACATGTCAAGCATAGATGTTGGATTCTATATCCAGAAGCCAAAGTTTCTAAAGGAAGGAAAAAGTTCTCAAAAAGGTTGGAATTAGCAAACCTTGCAGATAATTCTTCTACTCCTTCTAAAGGTATGCTGAAGTTCACCTCCAATCCTACCACTTTAATCAACGAATTTTCTGCCTATCTCAGCAAGAAGCAGATGCAGAGTGGAGGTGAAGAAACAGCCATGCCTAGAATTGAAGGCCACACTGATCTTCTTGGAAAATTTGTTGGATCTCATCACCAAGAAGATGATTGGTGA
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 Retrotran_gag_3 Retrotrans_gag rve

Protein Analysis

210

Amino Acids

24.24

Weight (kDa)

9.28

Isoelectric Point (pI)

42.8

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 613
AcsI RAATTY 2 cut(s) 503, 596
AcuI CTGAAG 2 cut(s) 297, 488
AfaI GTAC 1 cut(s) 290
AfiI CCNNNNNNNGG 3 cut(s) 45, 186, 458
AflII CTTAAG 1 cut(s) 100
AflIII ACRYGT 1 cut(s) 340
AgsI TTSAA 5 cut(s) 86, 163, 185, 313, 572
AluBI AGCT 9 cut(s) 13, 65, 99, 105, 151, 251, 275, 281, 321
AluI AGCT 9 cut(s) 13, 65, 99, 105, 151, 251, 275, 281, 321
Alw26I GTCTC 3 cut(s) 215, 262, 295
AlwI GGATC 1 cut(s) 613
AlwNI CAGNNNCTG 1 cut(s) 324
AoxI GGCC 1 cut(s) 574
ApeKI GCWGC 1 cut(s) 318
ApoI RAATTY 2 cut(s) 503, 596
Asp700I GAANNNNTTC 2 cut(s) 195, 401
AsuHPI GGTGA 4 cut(s) 220, 466, 557, 605
AsuII TTCGAA 1 cut(s) 199
BaeI ACNNNNGTAYC 2 cut(s) 219, 252
BarI GAAGNNNNNNTAC 2 cut(s) 305, 337
BbsI GAAGAC 1 cut(s) 123
BbvCI CCTCAGC 1 cut(s) 66
BbvI GCAGC 1 cut(s) 330
BccI CCATC 1 cut(s) 163
BcgI CGANNNNNNTGC 2 cut(s) 491, 525
BcoDI GTCTC 3 cut(s) 215, 262, 295
BfaI CTAG 3 cut(s) 45, 246, 564
BfrI CTTAAG 1 cut(s) 100
BisI GCNGC 1 cut(s) 319
BlpI GCTNAGC 1 cut(s) 147
BlsI GCNGC 1 cut(s) 320
BmsI GCATC 1 cut(s) 522
BpiI GAAGAC 1 cut(s) 123
Bpu10I CCTNAGC 1 cut(s) 66
Bpu1102I GCTNAGC 1 cut(s) 147
Bpu14I TTCGAA 1 cut(s) 199
BpuEI CTTGAG 1 cut(s) 142
BsaI GGTCTC 2 cut(s) 215, 295
BsaJI CCNNGG 1 cut(s) 39
Bsc4I CCNNNNNNNGG 3 cut(s) 45, 186, 458
BseDI CCNNGG 1 cut(s) 39
BseGI GGATG 1 cut(s) 22
BseLI CCNNNNNNNGG 3 cut(s) 45, 186, 458
BseMII CTCAG 3 cut(s) 57, 120, 532
BseRI GAGGAG 3 cut(s) 80, 83, 139
BseXI GCAGC 1 cut(s) 330
BsgI GTGCAG 1 cut(s) 337
BshFI GGCC 1 cut(s) 576
BslI CCNNNNNNNGG 3 cut(s) 45, 186, 458
BsmAI GTCTC 3 cut(s) 215, 262, 295
BsmI GAATGC 1 cut(s) 148
BsnI GGCC 1 cut(s) 576
Bso31I GGTCTC 2 cut(s) 215, 295
Bsp119I TTCGAA 1 cut(s) 199
Bsp1407I TGTACA 1 cut(s) 288
Bsp143I GATC 2 cut(s) 583, 605
Bsp1720I GCTNAGC 1 cut(s) 147
BspANI GGCC 1 cut(s) 576
BspCNI CTCAG 3 cut(s) 58, 119, 531
BspPI GGATC 1 cut(s) 613
BspT104I TTCGAA 1 cut(s) 199
BspTI CTTAAG 1 cut(s) 100
BspTNI GGTCTC 2 cut(s) 215, 295
BsrGI TGTACA 1 cut(s) 288
BssECI CCNNGG 1 cut(s) 39
BssMI GATC 2 cut(s) 583, 605
Bst4CI ACNGT 1 cut(s) 326
Bst6I CTCTTC 1 cut(s) 186
BstAFI CTTAAG 1 cut(s) 100
BstAPI GCANNNNNTGC 1 cut(s) 431
BstAUI TGTACA 1 cut(s) 288
BstBI TTCGAA 1 cut(s) 199
BstC8I GCNNGC 2 cut(s) 97, 273
BstDEI CTNAG 4 cut(s) 66, 106, 147, 518
BstENI CCTNNNNNAGG 1 cut(s) 456
BstF5I GGATG 1 cut(s) 22
BstKTI GATC 2 cut(s) 586, 608
BstMAI GTCTC 3 cut(s) 215, 262, 295
BstMBI GATC 2 cut(s) 583, 605
BstMWI GCNNNNNNNGC 1 cut(s) 431
BstNSI RCATGY 1 cut(s) 344
BstV1I GCAGC 1 cut(s) 330
BstV2I GAAGAC 1 cut(s) 123
BstX2I RGATCY 1 cut(s) 605
BstYI RGATCY 1 cut(s) 605
BsuRI GGCC 1 cut(s) 576
BtsCI GGATG 1 cut(s) 22
BtsIMutI CAGTG 1 cut(s) 579
Cac8I GCNNGC 2 cut(s) 97, 273
CaiI CAGNNNCTG 1 cut(s) 324
Csp6I GTAC 1 cut(s) 289
CviAII CATG 2 cut(s) 341, 559
CviQI GTAC 1 cut(s) 289
DdeI CTNAG 4 cut(s) 66, 106, 147, 518
DpnI GATC 2 cut(s) 585, 607
DpnII GATC 2 cut(s) 583, 605
Eam1104I CTCTTC 1 cut(s) 186
EarI CTCTTC 1 cut(s) 186
Eco31I GGTCTC 2 cut(s) 215, 295
Eco57I CTGAAG 2 cut(s) 297, 488
EcoNI CCTNNNNNAGG 1 cut(s) 456
FaeI CATG 2 cut(s) 344, 562
FatI CATG 2 cut(s) 340, 558
Fnu4HI GCNGC 1 cut(s) 319
FokI GGATG 1 cut(s) 29
Fsp4HI GCNGC 1 cut(s) 319
FspBI CTAG 3 cut(s) 45, 246, 564
GluI GCNGC 1 cut(s) 319
HaeIII GGCC 1 cut(s) 576
Hin1II CATG 2 cut(s) 344, 562
HindIII AAGCTT 1 cut(s) 97
HinfI GANTC 2 cut(s) 127, 361
HphI GGTGA 4 cut(s) 220, 466, 557, 605
Hpy166II GTNNAC 2 cut(s) 289, 474
Hpy188I TCNGA 2 cut(s) 109, 241
Hpy188III TCNNGA 1 cut(s) 371
Hpy8I GTNNAC 2 cut(s) 289, 474
HpyAV CCTTC 3 cut(s) 387, 462, 566
HpyCH4III ACNGT 1 cut(s) 326
HpyCH4V TGCA 3 cut(s) 318, 434, 535
HpyF10VI GCNNNNNNNGC 1 cut(s) 431
HpyF3I CTNAG 4 cut(s) 66, 106, 147, 518
Hsp92II CATG 2 cut(s) 344, 562
Kzo9I GATC 2 cut(s) 583, 605
LpnPI CCDG 4 cut(s) 253, 283, 318, 384
Lsp1109I GCAGC 1 cut(s) 330
LweI GCATC 1 cut(s) 522
MaeI CTAG 3 cut(s) 45, 246, 564
MaeIII GTNAC 1 cut(s) 128
MalI GATC 2 cut(s) 585, 607
MboI GATC 2 cut(s) 583, 605
MboII GAAGA 6 cut(s) 128, 203, 435, 560, 578, 632
MflI RGATCY 1 cut(s) 605
MluCI AATT 5 cut(s) 419, 439, 503, 567, 596
MlyI GAGTC 1 cut(s) 136
MmeI TCCRAC 3 cut(s) 338, 396, 583
MroXI GAANNNNTTC 2 cut(s) 195, 401
MseI TTAA 3 cut(s) 56, 101, 494
MslI CAYNNNNRTG 1 cut(s) 137
MspCI CTTAAG 1 cut(s) 100
Mva1269I GAATGC 1 cut(s) 148
MwoI GCNNNNNNNGC 1 cut(s) 431
NdeII GATC 2 cut(s) 583, 605
NlaIII CATG 2 cut(s) 344, 562
NmuCI GTSAC 1 cut(s) 128
NspI RCATGY 1 cut(s) 344
NspV TTCGAA 1 cut(s) 199
PciI ACATGT 1 cut(s) 340
PctI GAATGC 1 cut(s) 148
PdmI GAANNNNTTC 2 cut(s) 195, 401
PfeI GAWTC 1 cut(s) 361
PkrI GCNGC 1 cut(s) 320
PleI GAGTC 1 cut(s) 135
PpsI GAGTC 1 cut(s) 135
PscI ACATGT 1 cut(s) 340
PstNI CAGNNNCTG 1 cut(s) 324
PsuI RGATCY 1 cut(s) 605
RsaI GTAC 1 cut(s) 290
RsaNI GTAC 1 cut(s) 289
RseI CAYNNNNRTG 1 cut(s) 137
SaqAI TTAA 3 cut(s) 56, 101, 494
SatI GCNGC 1 cut(s) 319
Sau3AI GATC 2 cut(s) 583, 605
SchI GAGTC 1 cut(s) 136
SfaNI GCATC 1 cut(s) 522
SfuI TTCGAA 1 cut(s) 199
SmiMI CAYNNNNRTG 1 cut(s) 137
SmlI CTYRAG 2 cut(s) 100, 121
SmoI CTYRAG 2 cut(s) 100, 121
Sse9I AATT 5 cut(s) 419, 439, 503, 567, 596
SspMI CTAG 3 cut(s) 45, 246, 564
TaaI ACNGT 1 cut(s) 326
TaqI TCGA 1 cut(s) 199
TasI AATT 5 cut(s) 419, 439, 503, 567, 596
TatI WGTACW 1 cut(s) 288
TfiI GAWTC 1 cut(s) 361
Tru1I TTAA 3 cut(s) 56, 101, 494
Tru9I TTAA 3 cut(s) 56, 101, 494
TscAI CASTG 1 cut(s) 586
TseFI GTSAC 1 cut(s) 128
TseI GCWGC 1 cut(s) 318
Tsp45I GTSAC 1 cut(s) 128
TspDTI ATGAA 3 cut(s) 129, 155, 227
TspRI CASTG 1 cut(s) 586
Vha464I CTTAAG 1 cut(s) 100
XagI CCTNNNNNAGG 1 cut(s) 456
XapI RAATTY 2 cut(s) 503, 596
XceI RCATGY 1 cut(s) 344
XmnI GAANNNNTTC 2 cut(s) 195, 401
XspI CTAG 3 cut(s) 45, 246, 564
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.