Rw5G005620

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0000562
Physical Location & Seq
Reverse (-)
5960563 .. 5961422
860 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G005620.1

Sequence Viewer

Length: 534 bp
ATGAGTCCTGAACTACCATCCTTGACCAGCATCTGCTCTACCATTCAGCGTGAAGAAACTAGGAGGAAGGTCGTGAATGAAGATTCAACGACATCTGTATCTGAAACTAGAGCTTTTGCAAGTGATCTCAAGCTAGCAGAGAAGAAACCTTACAGAGGTAAACGTCCTGATCTTCACTGTACTTATTGTGATCATCCTAGACATCTCAAAGAAAGGTGTTGGATATTGCATCCTGAACTCAAACCCAGATTTGAGAAACCAGTCAGAGATACCAAGTCTTTTCAAAAAAATCATGGCTACAAGGCAAATCATGTTGCTTCTACCACTGAGGGATTACTAAACTTCACTGCAAATCCAGCTGCATTGATCAATGAATTTGCAGCCTACCTCCAACAGAAGCAAGGAAATGAAAAAAGGTCTGTTCCTGAAGACTCAACAGCTCTACTTGGAAAATTTGCTGGTTTCCTAGCAGACGCAGATGGAATAACTCAGCAGGATATACCAGGATCTTGCCACCAAGAAGCAGATTGGTGA
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

19.98

Weight (kDa)

7.68

Isoelectric Point (pI)

46.23

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 1 cut(s) 447
AfaI GTAC 1 cut(s) 181
AfiI CCNNNNNNNGG 1 cut(s) 155
AgsI TTSAA 2 cut(s) 87, 284
AjnI CCWGG 1 cut(s) 502
AluBI AGCT 4 cut(s) 113, 133, 359, 440
AluI AGCT 4 cut(s) 113, 133, 359, 440
AlwI GGATC 1 cut(s) 514
AlwNI CAGNNNCTG 1 cut(s) 33
ApeKI GCWGC 2 cut(s) 359, 380
ApoI RAATTY 2 cut(s) 374, 452
AsuNHI GCTAGC 1 cut(s) 133
BaeI ACNNNNGTAYC 2 cut(s) 81, 114
BarI GAAGNNNNNNTAC 2 cut(s) 134, 166
BbsI GAAGAC 1 cut(s) 435
BbvI GCAGC 2 cut(s) 346, 392
BccI CCATC 2 cut(s) 25, 473
BciT130I CCWGG 1 cut(s) 504
BclI TGATCA 2 cut(s) 190, 366
BfaI CTAG 5 cut(s) 60, 108, 134, 198, 467
BisI GCNGC 2 cut(s) 360, 381
BlsI GCNGC 2 cut(s) 361, 382
Bme1390I CCNGG 1 cut(s) 504
BmrFI CCNGG 1 cut(s) 504
BmsI GCATC 2 cut(s) 39, 238
BmtI GCTAGC 1 cut(s) 137
BpiI GAAGAC 1 cut(s) 435
BpuEI CTTGAG 1 cut(s) 113
Bsc4I CCNNNNNNNGG 1 cut(s) 155
Bse1I ACTGG 1 cut(s) 260
BseBI CCWGG 1 cut(s) 504
BseGI GGATG 3 cut(s) 17, 193, 229
BseLI CCNNNNNNNGG 1 cut(s) 155
BseMII CTCAG 2 cut(s) 318, 503
BseNI ACTGG 1 cut(s) 260
BseXI GCAGC 2 cut(s) 346, 392
BslI CCNNNNNNNGG 1 cut(s) 155
Bsp143I GATC 5 cut(s) 124, 169, 190, 366, 506
BspCNI CTCAG 2 cut(s) 319, 502
BspOI GCTAGC 1 cut(s) 137
BspPI GGATC 1 cut(s) 514
BsrI ACTGG 1 cut(s) 260
BssMI GATC 5 cut(s) 124, 169, 190, 366, 506
Bst2UI CCWGG 1 cut(s) 504
Bst4CI ACNGT 1 cut(s) 179
BstC8I GCNNGC 1 cut(s) 135
BstDEI CTNAG 2 cut(s) 327, 489
BstENI CCTNNNNNAGG 1 cut(s) 153
BstF5I GGATG 3 cut(s) 17, 193, 229
BstKTI GATC 5 cut(s) 127, 172, 193, 369, 509
BstMBI GATC 5 cut(s) 124, 169, 190, 366, 506
BstMWI GCNNNNNNNGC 1 cut(s) 356
BstNI CCWGG 1 cut(s) 504
BstSCI CCNGG 1 cut(s) 502
BstV1I GCAGC 2 cut(s) 346, 392
BstV2I GAAGAC 1 cut(s) 435
BstX2I RGATCY 1 cut(s) 506
BstYI RGATCY 1 cut(s) 506
BtsCI GGATG 3 cut(s) 17, 193, 229
BtsI GCAGTG 1 cut(s) 345
BtsIMutI CAGTG 3 cut(s) 175, 324, 345
Cac8I GCNNGC 1 cut(s) 135
CaiI CAGNNNCTG 1 cut(s) 33
CseI GACGC 1 cut(s) 482
Csp6I GTAC 1 cut(s) 180
CviAII CATG 2 cut(s) 293, 311
CviJI RGCY 6 cut(s) 113, 133, 297, 359, 383, 440
CviKI_1 RGCY 6 cut(s) 113, 133, 297, 359, 383, 440
CviQI GTAC 1 cut(s) 180
DdeI CTNAG 2 cut(s) 327, 489
DpnI GATC 5 cut(s) 126, 171, 192, 368, 508
DpnII GATC 5 cut(s) 124, 169, 190, 366, 506
Eco57I CTGAAG 1 cut(s) 447
EcoNI CCTNNNNNAGG 1 cut(s) 153
EcoRII CCWGG 1 cut(s) 502
FaeI CATG 2 cut(s) 296, 314
FaiI YATR 3 cut(s) 294, 312, 500
FatI CATG 2 cut(s) 292, 310
FbaI TGATCA 2 cut(s) 190, 366
Fnu4HI GCNGC 2 cut(s) 360, 381
FokI GGATG 3 cut(s) 4, 180, 216
Fsp4HI GCNGC 2 cut(s) 360, 381
FspBI CTAG 5 cut(s) 60, 108, 134, 198, 467
GluI GCNGC 2 cut(s) 360, 381
HgaI GACGC 1 cut(s) 482
Hin1II CATG 2 cut(s) 296, 314
HinfI GANTC 3 cut(s) 4, 83, 431
Hpy166II GTNNAC 1 cut(s) 161
Hpy188I TCNGA 2 cut(s) 103, 266
Hpy188III TCNNGA 5 cut(s) 8, 73, 167, 233, 425
Hpy8I GTNNAC 1 cut(s) 161
HpyAV CCTTC 1 cut(s) 61
HpyCH4III ACNGT 1 cut(s) 179
HpyCH4IV ACGT 1 cut(s) 163
HpyCH4V TGCA 5 cut(s) 119, 229, 350, 362, 380
HpyF10VI GCNNNNNNNGC 1 cut(s) 356
HpyF3I CTNAG 2 cut(s) 327, 489
HpySE526I ACGT 1 cut(s) 163
Hsp92II CATG 2 cut(s) 296, 314
Ksp22I TGATCA 2 cut(s) 190, 366
Kzo9I GATC 5 cut(s) 124, 169, 190, 366, 506
Lsp1109I GCAGC 2 cut(s) 346, 392
LweI GCATC 2 cut(s) 39, 238
MaeI CTAG 5 cut(s) 60, 108, 134, 198, 467
MaeII ACGT 1 cut(s) 163
MalI GATC 5 cut(s) 126, 171, 192, 368, 508
MboI GATC 5 cut(s) 124, 169, 190, 366, 506
MboII GAAGA 5 cut(s) 65, 92, 154, 164, 440
MflI RGATCY 1 cut(s) 506
MluCI AATT 2 cut(s) 374, 452
MlyI GAGTC 2 cut(s) 13, 425
MmeI TCCRAC 2 cut(s) 200, 415
MnlI CCTC 4 cut(s) 57, 149, 322, 398
MspA1I CMGCKG 1 cut(s) 359
MspR9I CCNGG 1 cut(s) 504
MvaI CCWGG 1 cut(s) 504
MwoI GCNNNNNNNGC 1 cut(s) 356
NdeII GATC 5 cut(s) 124, 169, 190, 366, 506
NheI GCTAGC 1 cut(s) 133
NlaIII CATG 2 cut(s) 296, 314
PfeI GAWTC 1 cut(s) 83
PkrI GCNGC 2 cut(s) 361, 382
PleI GAGTC 2 cut(s) 12, 425
PpsI GAGTC 2 cut(s) 12, 425
Psp6I CCWGG 1 cut(s) 502
PspGI CCWGG 1 cut(s) 502
PstNI CAGNNNCTG 1 cut(s) 33
PsuI RGATCY 1 cut(s) 506
PvuII CAGCTG 1 cut(s) 359
RsaI GTAC 1 cut(s) 181
RsaNI GTAC 1 cut(s) 180
SatI GCNGC 2 cut(s) 360, 381
Sau3AI GATC 5 cut(s) 124, 169, 190, 366, 506
SchI GAGTC 2 cut(s) 13, 425
ScrFI CCNGG 1 cut(s) 504
SfaNI GCATC 2 cut(s) 39, 238
SmlI CTYRAG 1 cut(s) 128
SmoI CTYRAG 1 cut(s) 128
Sse9I AATT 2 cut(s) 374, 452
SspMI CTAG 5 cut(s) 60, 108, 134, 198, 467
StyD4I CCNGG 1 cut(s) 502
TaaI ACNGT 1 cut(s) 179
TaiI ACGT 1 cut(s) 166
TasI AATT 2 cut(s) 374, 452
TatI WGTACW 1 cut(s) 179
TfiI GAWTC 1 cut(s) 83
TscAI CASTG 3 cut(s) 182, 331, 352
TseI GCWGC 2 cut(s) 359, 380
TspDTI ATGAA 3 cut(s) 93, 387, 423
TspRI CASTG 3 cut(s) 182, 331, 352
XagI CCTNNNNNAGG 1 cut(s) 153
XapI RAATTY 2 cut(s) 374, 452
XspI CTAG 5 cut(s) 60, 108, 134, 198, 467
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.