Rmu_sc0020285.1_g000003

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0020285.1
OG0000562
Physical Location & Seq
Reverse (-)
3271 .. 4210
940 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0020285.1_g000003.1.cds

Sequence Viewer

Length: 561 bp
atggaaactaagactagtgcatctgaaactagagcttatgttgctaatcacaacccagcagaagctaaggtgtacaaaggcaagagacctgacttgaaatgcagctactgtgagggtattggacatgtcagggatagatgttgggttctctatcttgaacagaagccaaagtttctgaaggaaggaaaagtttctcaaaagagttggaatccaccaaaagcaaacctggcagcaactagttctgagggtatgctgaatttcacctccaatcctactactttaatcaatgaatttgctgcctatctcagcaagaagcatatgcatggtggaggtgaagaaactaccatgcctgggattgaaggccacactgcactccgtggaaaatttgatctcatcaccaagaagacgattggtgaaggtttctttttgaatggtctttattatctgtccaagaattcttttgattccaaggttttccaagtcagttcaagatcagcacaagatcatcatctatggcataaacgcttggctccgtggtgtgccctctacacttcattgtga
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

186

Amino Acids

20.93

Weight (kDa)

9.38

Isoelectric Point (pI)

37.79

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)
AcsI RAATTY 4 cut(s) 256, 290, 383, 454
AcuI CTGAAG 1 cut(s) 197
AdeI CACNNNGTG 1 cut(s) 377
AfaI GTAC 1 cut(s) 74
AfiI CCNNNNNNNGG 1 cut(s) 351
AflIII ACRYGT 1 cut(s) 124
AgsI TTSAA 5 cut(s) 97, 158, 359, 430, 489
AhlI ACTAGT 2 cut(s) 14, 236
AjnI CCWGG 2 cut(s) 225, 349
AluBI AGCT 3 cut(s) 35, 65, 105
AluI AGCT 3 cut(s) 35, 65, 105
Alw26I GTCTC 1 cut(s) 79
AlwNI CAGNNNCTG 1 cut(s) 108
AoxI GGCC 1 cut(s) 361
ApeKI GCWGC 3 cut(s) 102, 230, 296
ApoI RAATTY 4 cut(s) 256, 290, 383, 454
Asp700I GAANNNNTTC 1 cut(s) 190
AsuHPI GGTGA 4 cut(s) 253, 344, 388, 425
BaeGI GKGCMC 1 cut(s) 544
BbsI GAAGAC 1 cut(s) 410
BbvI GCAGC 3 cut(s) 114, 242, 283
BciT130I CCWGG 2 cut(s) 227, 351
BcoDI GTCTC 1 cut(s) 79
BcuI ACTAGT 2 cut(s) 14, 236
BfaI CTAG 3 cut(s) 15, 30, 237
BisI GCNGC 3 cut(s) 103, 231, 297
BlsI GCNGC 3 cut(s) 104, 232, 298
Bme1390I CCNGG 2 cut(s) 227, 351
BmiI GGNNCC 1 cut(s) 531
BmrFI CCNGG 2 cut(s) 227, 351
BmsI GCATC 1 cut(s) 29
BpiI GAAGAC 1 cut(s) 410
Bpu10I CCTNAGC 1 cut(s) 66
BsaBI GATNNNNATC 1 cut(s) 507
BsaI GGTCTC 1 cut(s) 79
BsaJI CCNNGG 4 cut(s) 350, 376, 468, 533
Bsc4I CCNNNNNNNGG 1 cut(s) 351
Bse8I GATNNNNATC 1 cut(s) 507
BseBI CCWGG 2 cut(s) 227, 351
BseDI CCNNGG 4 cut(s) 350, 376, 468, 533
BseJI GATNNNNATC 1 cut(s) 507
BseLI CCNNNNNNNGG 1 cut(s) 351
BseMII CTCAG 2 cut(s) 234, 319
BseSI GKGCMC 1 cut(s) 544
BseXI GCAGC 3 cut(s) 114, 242, 283
BseYI CCCAGC 1 cut(s) 55
BsgI GTGCAG 1 cut(s) 354
BshFI GGCC 1 cut(s) 363
BslI CCNNNNNNNGG 1 cut(s) 351
BsmAI GTCTC 1 cut(s) 79
BsnI GGCC 1 cut(s) 363
Bso31I GGTCTC 1 cut(s) 79
Bsp1286I GDGCHC 1 cut(s) 544
Bsp1407I TGTACA 1 cut(s) 72
Bsp143I GATC 3 cut(s) 388, 491, 502
BspANI GGCC 1 cut(s) 363
BspCNI CTCAG 2 cut(s) 235, 318
BspLI GGNNCC 1 cut(s) 531
BspTNI GGTCTC 1 cut(s) 79
BsrGI TGTACA 1 cut(s) 72
BssECI CCNNGG 4 cut(s) 350, 376, 468, 533
BssMI GATC 3 cut(s) 388, 491, 502
BssT1I CCWWGG 1 cut(s) 468
Bst2UI CCWGG 2 cut(s) 227, 351
Bst4CI ACNGT 1 cut(s) 110
BstAUI TGTACA 1 cut(s) 72
BstDEI CTNAG 4 cut(s) 9, 66, 243, 305
BstDSI CCRYGG 2 cut(s) 376, 533
BstKTI GATC 3 cut(s) 391, 494, 505
BstMAI GTCTC 1 cut(s) 79
BstMBI GATC 3 cut(s) 388, 491, 502
BstMWI GCNNNNNNNGC 2 cut(s) 41, 227
BstNI CCWGG 2 cut(s) 227, 351
BstNSI RCATGY 1 cut(s) 128
BstSCI CCNGG 2 cut(s) 225, 349
BstSLI GKGCMC 1 cut(s) 544
BstV1I GCAGC 3 cut(s) 114, 242, 283
BstV2I GAAGAC 1 cut(s) 410
BsuRI GGCC 1 cut(s) 363
BtgI CCRYGG 2 cut(s) 376, 533
BtsI GCAGTG 1 cut(s) 366
BtsIMutI CAGTG 1 cut(s) 366
CaiI CAGNNNCTG 1 cut(s) 108
Csp6I GTAC 1 cut(s) 73
CviAII CATG 3 cut(s) 125, 323, 346
CviJI RGCY 6 cut(s) 35, 65, 105, 166, 363, 530
CviKI_1 RGCY 6 cut(s) 35, 65, 105, 166, 363, 530
CviQI GTAC 1 cut(s) 73
DdeI CTNAG 4 cut(s) 9, 66, 243, 305
DpnI GATC 3 cut(s) 390, 493, 504
DpnII GATC 3 cut(s) 388, 491, 502
DraIII CACNNNGTG 1 cut(s) 377
Eco130I CCWWGG 1 cut(s) 468
Eco31I GGTCTC 1 cut(s) 79
Eco57I CTGAAG 1 cut(s) 197
EcoRI GAATTC 1 cut(s) 454
EcoRII CCWGG 2 cut(s) 225, 349
EcoT14I CCWWGG 1 cut(s) 468
EcoT22I ATGCAT 1 cut(s) 324
ErhI CCWWGG 1 cut(s) 468
FaeI CATG 3 cut(s) 128, 326, 349
FaiI YATR 9 cut(s) 39, 126, 251, 318, 320, 324, 347, 514, 519
FatI CATG 3 cut(s) 124, 322, 345
FauNDI CATATG 1 cut(s) 318
Fnu4HI GCNGC 3 cut(s) 103, 231, 297
Fsp4HI GCNGC 3 cut(s) 103, 231, 297
FspBI CTAG 3 cut(s) 15, 30, 237
GluI GCNGC 3 cut(s) 103, 231, 297
GsaI CCCAGC 1 cut(s) 59
HaeIII GGCC 1 cut(s) 363
Hin1II CATG 3 cut(s) 128, 326, 349
HinfI GANTC 2 cut(s) 208, 464
HphI GGTGA 4 cut(s) 253, 344, 388, 425
Hpy166II GTNNAC 1 cut(s) 73
Hpy188I TCNGA 3 cut(s) 25, 177, 244
Hpy188III TCNNGA 2 cut(s) 155, 489
Hpy8I GTNNAC 1 cut(s) 73
HpyAV CCTTC 4 cut(s) 172, 176, 353, 410
HpyCH4III ACNGT 1 cut(s) 110
HpyCH4V TGCA 4 cut(s) 20, 102, 322, 371
HpyF10VI GCNNNNNNNGC 2 cut(s) 41, 227
HpyF3I CTNAG 4 cut(s) 9, 66, 243, 305
Hsp92II CATG 3 cut(s) 128, 326, 349
Kzo9I GATC 3 cut(s) 388, 491, 502
LmnI GCTCC 1 cut(s) 535
LpnPI CCDG 7 cut(s) 69, 102, 115, 212, 239, 336, 363
Lsp1109I GCAGC 3 cut(s) 114, 242, 283
LweI GCATC 1 cut(s) 29
MaeI CTAG 3 cut(s) 15, 30, 237
MalI GATC 3 cut(s) 390, 493, 504
MboI GATC 3 cut(s) 388, 491, 502
MboII GAAGA 2 cut(s) 347, 415
MhlI GDGCHC 1 cut(s) 544
MluCI AATT 4 cut(s) 256, 290, 383, 454
MmeI TCCRAC 1 cut(s) 185
MnlI CCTC 5 cut(s) 106, 238, 274, 323, 554
Mph1103I ATGCAT 1 cut(s) 324
MroXI GAANNNNTTC 1 cut(s) 190
MseI TTAA 1 cut(s) 281
MslI CAYNNNNRTG 1 cut(s) 321
MspR9I CCNGG 2 cut(s) 227, 351
MvaI CCWGG 2 cut(s) 227, 351
MwoI GCNNNNNNNGC 2 cut(s) 41, 227
NdeI CATATG 1 cut(s) 318
NdeII GATC 3 cut(s) 388, 491, 502
NlaIII CATG 3 cut(s) 128, 326, 349
NlaIV GGNNCC 1 cut(s) 531
NsiI ATGCAT 1 cut(s) 324
NspI RCATGY 1 cut(s) 128
PciI ACATGT 1 cut(s) 124
PdmI GAANNNNTTC 1 cut(s) 190
PfeI GAWTC 2 cut(s) 208, 464
PkrI GCNGC 3 cut(s) 104, 232, 298
PscI ACATGT 1 cut(s) 124
Psp6I CCWGG 2 cut(s) 225, 349
PspFI CCCAGC 1 cut(s) 55
PspGI CCWGG 2 cut(s) 225, 349
PspN4I GGNNCC 1 cut(s) 531
PstNI CAGNNNCTG 1 cut(s) 108
RsaI GTAC 1 cut(s) 74
RsaNI GTAC 1 cut(s) 73
RseI CAYNNNNRTG 1 cut(s) 321
SaqAI TTAA 1 cut(s) 281
SatI GCNGC 3 cut(s) 103, 231, 297
Sau3AI GATC 3 cut(s) 388, 491, 502
ScrFI CCNGG 2 cut(s) 227, 351
SduI GDGCHC 1 cut(s) 544
SfaNI GCATC 1 cut(s) 29
SmiMI CAYNNNNRTG 1 cut(s) 321
SpeI ACTAGT 2 cut(s) 14, 236
Sse9I AATT 4 cut(s) 256, 290, 383, 454
SspMI CTAG 3 cut(s) 15, 30, 237
StyD4I CCNGG 2 cut(s) 225, 349
StyI CCWWGG 1 cut(s) 468
TaaI ACNGT 1 cut(s) 110
TasI AATT 4 cut(s) 256, 290, 383, 454
TatI WGTACW 1 cut(s) 72
TfiI GAWTC 2 cut(s) 208, 464
Tru1I TTAA 1 cut(s) 281
Tru9I TTAA 1 cut(s) 281
TscAI CASTG 1 cut(s) 373
TseI GCWGC 3 cut(s) 102, 230, 296
TspDTI ATGAA 2 cut(s) 303, 543
TspGWI ACGGA 2 cut(s) 365, 522
TspRI CASTG 1 cut(s) 373
XapI RAATTY 4 cut(s) 256, 290, 383, 454
XceI RCATGY 1 cut(s) 128
XmnI GAANNNNTTC 1 cut(s) 190
XspI CTAG 3 cut(s) 15, 30, 237
Zsp2I ATGCAT 1 cut(s) 324
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.