Rw5G041560

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000562
Physical Location & Seq
Reverse (-)
73106761 .. 73107621
861 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G041560.1

Sequence Viewer

Length: 534 bp
ATGACTCCTGAACTACCAACTTTGACCAGCATCTGCTCTACCATTCAACGTGAAGAGACTCGGAGAAAAGTCATGAATGAAGACTTAAAGACATCTGTTTCTGAAGCTAGAGCTTTTGCAAGTGATCATAAGCCAGCTGAGAAGAAACCTTACAGAGGTAAACGCCCTGATCTTCACTGTACTTACTGTGATCATCCTGGACATCTCAGAGACAGGTGCTGGATACTGCATCCAGAACTCAAACCCAAGTTTGATAAGCAAGCCAGAGATACCAGGTTCTTTCCAAAAAATCATGGTCACAAGGCAAATCATGTGGCTTCTGCTACTGAGGGATTACTAAACTTCACTGCAAATCCAGCTGCACTGATAAATGAATTTGCAGCCTACATCAAATTGAAGCAAGGAAATGAAAAAGAGGCTGTTACTGAAGACTCAACAGCTTTACTTGGAAAATTCGCTGGTTTTCTAGCAGAGGCAGATGGAATAACTCAACATGATGTGTCAGGATCTAGCCACCAAGGAGCAGATTGGTGA
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 rve

Protein Analysis

177

Amino Acids

19.81

Weight (kDa)

7.76

Isoelectric Point (pI)

30.25

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) 514
AcsI RAATTY 2 cut(s) 374, 452
AcuI CTGAAG 2 cut(s) 123, 447
AfaI GTAC 1 cut(s) 181
AfiI CCNNNNNNNGG 1 cut(s) 155
AgsI TTSAA 2 cut(s) 47, 397
AjnI CCWGG 2 cut(s) 196, 272
AluBI AGCT 5 cut(s) 107, 113, 137, 359, 440
AluI AGCT 5 cut(s) 107, 113, 137, 359, 440
Alw26I GTCTC 2 cut(s) 50, 204
AlwI GGATC 1 cut(s) 514
AlwNI CAGNNNCTG 2 cut(s) 33, 219
ApeKI GCWGC 2 cut(s) 359, 380
ApoI RAATTY 2 cut(s) 374, 452
BarI GAAGNNNNNNTAC 2 cut(s) 134, 166
BbsI GAAGAC 2 cut(s) 87, 435
BbvI GCAGC 2 cut(s) 346, 392
BccI CCATC 1 cut(s) 473
BciT130I CCWGG 2 cut(s) 198, 274
BciVI GTATCC 1 cut(s) 216
BclI TGATCA 2 cut(s) 124, 190
BcoDI GTCTC 2 cut(s) 50, 204
BfaI CTAG 3 cut(s) 108, 467, 510
BfuI GTATCC 1 cut(s) 216
BisI GCNGC 2 cut(s) 360, 381
BlsI GCNGC 2 cut(s) 361, 382
Bme1390I CCNGG 2 cut(s) 198, 274
BmrFI CCNGG 2 cut(s) 198, 274
BmsI GCATC 2 cut(s) 39, 238
BpiI GAAGAC 2 cut(s) 87, 435
BsaJI CCNNGG 1 cut(s) 517
Bsc4I CCNNNNNNNGG 1 cut(s) 155
BseBI CCWGG 2 cut(s) 198, 274
BseDI CCNNGG 1 cut(s) 517
BseGI GGATG 2 cut(s) 193, 229
BseLI CCNNNNNNNGG 1 cut(s) 155
BseMII CTCAG 3 cut(s) 129, 220, 318
BseXI GCAGC 2 cut(s) 346, 392
BsgI GTGCAG 1 cut(s) 345
BslI CCNNNNNNNGG 1 cut(s) 155
BsmAI GTCTC 2 cut(s) 50, 204
Bsp143I GATC 4 cut(s) 124, 169, 190, 506
BspCNI CTCAG 3 cut(s) 130, 219, 319
BspHI TCATGA 1 cut(s) 72
BspPI GGATC 1 cut(s) 514
BssECI CCNNGG 1 cut(s) 517
BssMI GATC 4 cut(s) 124, 169, 190, 506
BssT1I CCWWGG 1 cut(s) 517
Bst2UI CCWGG 2 cut(s) 198, 274
Bst4CI ACNGT 2 cut(s) 179, 188
Bst6I CTCTTC 1 cut(s) 48
BstC8I GCNNGC 2 cut(s) 135, 261
BstDEI CTNAG 3 cut(s) 138, 206, 327
BstENI CCTNNNNNAGG 1 cut(s) 153
BstF5I GGATG 2 cut(s) 193, 229
BstKTI GATC 4 cut(s) 127, 172, 193, 509
BstMAI GTCTC 2 cut(s) 50, 204
BstMBI GATC 4 cut(s) 124, 169, 190, 506
BstMWI GCNNNNNNNGC 1 cut(s) 356
BstNI CCWGG 2 cut(s) 198, 274
BstSCI CCNGG 2 cut(s) 196, 272
BstV1I GCAGC 2 cut(s) 346, 392
BstV2I GAAGAC 2 cut(s) 87, 435
BstX2I RGATCY 1 cut(s) 506
BstYI RGATCY 1 cut(s) 506
BsuI GTATCC 1 cut(s) 216
BtsCI GGATG 2 cut(s) 193, 229
BtsI GCAGTG 1 cut(s) 345
BtsIMutI CAGTG 3 cut(s) 175, 345, 362
Cac8I GCNNGC 2 cut(s) 135, 261
CaiI CAGNNNCTG 2 cut(s) 33, 219
CciI TCATGA 1 cut(s) 72
CsiI ACCWGGT 1 cut(s) 272
Csp6I GTAC 1 cut(s) 180
CspCI CAANNNNNGTGG 2 cut(s) 294, 329
CviAII CATG 4 cut(s) 73, 293, 311, 494
CviQI GTAC 1 cut(s) 180
DdeI CTNAG 3 cut(s) 138, 206, 327
DpnI GATC 4 cut(s) 126, 171, 192, 508
DpnII GATC 4 cut(s) 124, 169, 190, 506
Eam1104I CTCTTC 1 cut(s) 48
EarI CTCTTC 1 cut(s) 48
Eco130I CCWWGG 1 cut(s) 517
Eco57I CTGAAG 2 cut(s) 123, 447
EcoNI CCTNNNNNAGG 1 cut(s) 153
EcoRII CCWGG 2 cut(s) 196, 272
EcoT14I CCWWGG 1 cut(s) 517
ErhI CCWWGG 1 cut(s) 517
FaeI CATG 4 cut(s) 76, 296, 314, 497
FaiI YATR 5 cut(s) 74, 129, 294, 312, 495
FatI CATG 4 cut(s) 72, 292, 310, 493
FbaI TGATCA 2 cut(s) 124, 190
Fnu4HI GCNGC 2 cut(s) 360, 381
FokI GGATG 2 cut(s) 180, 216
Fsp4HI GCNGC 2 cut(s) 360, 381
FspBI CTAG 3 cut(s) 108, 467, 510
GluI GCNGC 2 cut(s) 360, 381
Hin1II CATG 4 cut(s) 76, 296, 314, 497
HinfI GANTC 3 cut(s) 4, 58, 431
Hpy166II GTNNAC 1 cut(s) 161
Hpy188I TCNGA 3 cut(s) 63, 103, 209
Hpy188III TCNNGA 4 cut(s) 8, 73, 233, 504
Hpy8I GTNNAC 1 cut(s) 161
HpyCH4III ACNGT 2 cut(s) 179, 188
HpyCH4IV ACGT 1 cut(s) 49
HpyCH4V TGCA 5 cut(s) 119, 229, 350, 362, 380
HpyF10VI GCNNNNNNNGC 1 cut(s) 356
HpyF3I CTNAG 3 cut(s) 138, 206, 327
HpySE526I ACGT 1 cut(s) 49
Hsp92II CATG 4 cut(s) 76, 296, 314, 497
Ksp22I TGATCA 2 cut(s) 124, 190
Kzo9I GATC 4 cut(s) 124, 169, 190, 506
LmnI GCTCC 1 cut(s) 521
Lsp1109I GCAGC 2 cut(s) 346, 392
LweI GCATC 2 cut(s) 39, 238
MabI ACCWGGT 1 cut(s) 272
MaeI CTAG 3 cut(s) 108, 467, 510
MaeII ACGT 1 cut(s) 49
MaeIII GTNAC 2 cut(s) 296, 421
MalI GATC 4 cut(s) 126, 171, 192, 508
MboI GATC 4 cut(s) 124, 169, 190, 506
MboII GAAGA 5 cut(s) 65, 92, 154, 164, 440
MflI RGATCY 1 cut(s) 506
MluCI AATT 3 cut(s) 374, 392, 452
MlyI GAGTC 2 cut(s) 52, 425
MnlI CCTC 4 cut(s) 149, 322, 409, 466
MseI TTAA 1 cut(s) 86
MspA1I CMGCKG 2 cut(s) 137, 359
MspR9I CCNGG 2 cut(s) 198, 274
MvaI CCWGG 2 cut(s) 198, 274
MwoI GCNNNNNNNGC 1 cut(s) 356
NdeII GATC 4 cut(s) 124, 169, 190, 506
NlaIII CATG 4 cut(s) 76, 296, 314, 497
NmuCI GTSAC 1 cut(s) 296
PagI TCATGA 1 cut(s) 72
PfoI TCCNGGA 1 cut(s) 196
PkrI GCNGC 2 cut(s) 361, 382
PleI GAGTC 2 cut(s) 52, 425
PpsI GAGTC 2 cut(s) 52, 425
Psp6I CCWGG 2 cut(s) 196, 272
PspGI CCWGG 2 cut(s) 196, 272
PstNI CAGNNNCTG 2 cut(s) 33, 219
PsuI RGATCY 1 cut(s) 506
PvuII CAGCTG 2 cut(s) 137, 359
RsaI GTAC 1 cut(s) 181
RsaNI GTAC 1 cut(s) 180
SaqAI TTAA 1 cut(s) 86
SatI GCNGC 2 cut(s) 360, 381
Sau3AI GATC 4 cut(s) 124, 169, 190, 506
SchI GAGTC 2 cut(s) 52, 425
ScrFI CCNGG 2 cut(s) 198, 274
SexAI ACCWGGT 1 cut(s) 272
SfaNI GCATC 2 cut(s) 39, 238
Sse9I AATT 3 cut(s) 374, 392, 452
SspMI CTAG 3 cut(s) 108, 467, 510
StyD4I CCNGG 2 cut(s) 196, 272
StyI CCWWGG 1 cut(s) 517
TaaI ACNGT 2 cut(s) 179, 188
TaiI ACGT 1 cut(s) 52
TasI AATT 3 cut(s) 374, 392, 452
TatI WGTACW 1 cut(s) 179
Tru1I TTAA 1 cut(s) 86
Tru9I TTAA 1 cut(s) 86
TscAI CASTG 3 cut(s) 182, 352, 369
TseFI GTSAC 1 cut(s) 296
TseI GCWGC 2 cut(s) 359, 380
Tsp45I GTSAC 1 cut(s) 296
TspDTI ATGAA 4 cut(s) 89, 93, 387, 423
TspRI CASTG 3 cut(s) 182, 352, 369
XagI CCTNNNNNAGG 1 cut(s) 153
XapI RAATTY 2 cut(s) 374, 452
XspI CTAG 3 cut(s) 108, 467, 510
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.