Rmu_sc0007215.1_g000004

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0007215.1
OG0000562
Physical Location & Seq
Reverse (-)
23264 .. 23916
653 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0007215.1_g000004.1.cds

Sequence Viewer

Length: 471 bp
atgtggaatgagctagatgtttatagacctcataccatcgaggctagtgttttgttaaagagagctgaggaggacaagatttttcaactccttgcaagcttaaactcagagtatgaagatttaagaagtcacattcttatgaatgctgagttaccatctatgaataatgtgtgtgctaccattcaaagagaaaagaagccgaaattcctaaaggaaggcaaaggtcttcaaaagggttggaatccaccaaaagcaaaccttgaaacagctttttctactccttctgagggtatgctgaacttcacctccaatcccactactctaatcaatgaatttggggcctatcgcaccacgaagcagatgcatggtggaaatgaagaaacaaccatggctgggattgaaggtcatactatactccttgggaagtttgctagttttcttgctgaaactgactgtgtccctcttgaataa
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 rve

Protein Analysis

156

Amino Acids

17.52

Weight (kDa)

5.44

Isoelectric Point (pI)

41.7

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 2 cut(s) 203, 332
AfiI CCNNNNNNNGG 2 cut(s) 287, 393
AgsI TTSAA 6 cut(s) 86, 185, 230, 263, 401, 467
AloI GAACNNNNNNTCC 2 cut(s) 290, 322
AluBI AGCT 4 cut(s) 13, 65, 99, 269
AluI AGCT 4 cut(s) 13, 65, 99, 269
AoxI GGCC 1 cut(s) 339
ApoI RAATTY 2 cut(s) 203, 332
AspS9I GGNCC 1 cut(s) 339
AsuHPI GGTGA 1 cut(s) 295
BbsI GAAGAC 1 cut(s) 218
BbvCI CCTCAGC 1 cut(s) 66
BccI CCATC 2 cut(s) 44, 163
BcgI CGANNNNNNTGC 2 cut(s) 343, 377
BfaI CTAG 3 cut(s) 14, 45, 432
BmgT120I GGNCC 1 cut(s) 339
BmiI GGNNCC 1 cut(s) 340
BmsI GCATC 1 cut(s) 351
BpiI GAAGAC 1 cut(s) 218
Bpu10I CCTNAGC 1 cut(s) 66
BsaJI CCNNGG 2 cut(s) 387, 418
BsaXI ACNNNNNCTCC 2 cut(s) 290, 320
Bsc4I CCNNNNNNNGG 2 cut(s) 287, 393
BseDI CCNNGG 2 cut(s) 387, 418
BseLI CCNNNNNNNGG 2 cut(s) 287, 393
BseMII CTCAG 4 cut(s) 57, 120, 138, 276
BseRI GAGGAG 1 cut(s) 83
BseYI CCCAGC 1 cut(s) 392
BshFI GGCC 1 cut(s) 341
BslFI GGGAC 1 cut(s) 443
BslI CCNNNNNNNGG 2 cut(s) 287, 393
BsmFI GGGAC 1 cut(s) 443
BsmI GAATGC 1 cut(s) 148
BsnI GGCC 1 cut(s) 341
Bsp19I CCATGG 1 cut(s) 387
BspANI GGCC 1 cut(s) 341
BspCNI CTCAG 4 cut(s) 58, 119, 139, 277
BspLI GGNNCC 1 cut(s) 340
BssECI CCNNGG 2 cut(s) 387, 418
BssT1I CCWWGG 2 cut(s) 387, 418
Bst4CI ACNGT 1 cut(s) 455
BstC8I GCNNGC 1 cut(s) 97
BstDEI CTNAG 4 cut(s) 66, 106, 147, 285
BstDSI CCRYGG 1 cut(s) 387
BstV2I GAAGAC 1 cut(s) 218
BsuRI GGCC 1 cut(s) 341
BtgI CCRYGG 1 cut(s) 387
Cac8I GCNNGC 1 cut(s) 97
Cfr13I GGNCC 1 cut(s) 339
CviAII CATG 2 cut(s) 365, 388
CviJI RGCY 8 cut(s) 13, 44, 65, 99, 199, 269, 341, 392
CviKI_1 RGCY 8 cut(s) 13, 44, 65, 99, 199, 269, 341, 392
DdeI CTNAG 4 cut(s) 66, 106, 147, 285
Eco130I CCWWGG 2 cut(s) 387, 418
EcoO109I RGGNCCY 1 cut(s) 339
EcoT14I CCWWGG 2 cut(s) 387, 418
EcoT22I ATGCAT 1 cut(s) 366
ErhI CCWWGG 2 cut(s) 387, 418
FaeI CATG 2 cut(s) 368, 391
FalI AAGNNNNNCTT 2 cut(s) 243, 275
FaqI GGGAC 1 cut(s) 443
FatI CATG 2 cut(s) 364, 387
FspBI CTAG 3 cut(s) 14, 45, 432
GsaI CCCAGC 1 cut(s) 396
HaeIII GGCC 1 cut(s) 341
Hin1II CATG 2 cut(s) 368, 391
HindIII AAGCTT 1 cut(s) 97
HinfI GANTC 1 cut(s) 241
HphI GGTGA 1 cut(s) 295
Hpy188I TCNGA 2 cut(s) 109, 286
Hpy188III TCNNGA 1 cut(s) 464
HpyAV CCTTC 3 cut(s) 209, 291, 395
HpyCH4III ACNGT 1 cut(s) 455
HpyCH4V TGCA 2 cut(s) 95, 364
HpyF3I CTNAG 4 cut(s) 66, 106, 147, 285
Hsp92II CATG 2 cut(s) 368, 391
LpnPI CCDG 1 cut(s) 378
LweI GCATC 1 cut(s) 351
MaeI CTAG 3 cut(s) 14, 45, 432
MaeIII GTNAC 2 cut(s) 128, 150
MboII GAAGA 3 cut(s) 128, 218, 389
MluCI AATT 2 cut(s) 203, 332
MmeI TCCRAC 1 cut(s) 218
MnlI CCTC 7 cut(s) 34, 39, 61, 64, 280, 316, 471
Mph1103I ATGCAT 1 cut(s) 366
MseI TTAA 3 cut(s) 56, 101, 122
MslI CAYNNNNRTG 1 cut(s) 137
Mva1269I GAATGC 1 cut(s) 148
NcoI CCATGG 1 cut(s) 387
NlaIII CATG 2 cut(s) 368, 391
NlaIV GGNNCC 1 cut(s) 340
NmuCI GTSAC 1 cut(s) 128
NsiI ATGCAT 1 cut(s) 366
PctI GAATGC 1 cut(s) 148
PfeI GAWTC 1 cut(s) 241
PflFI GACNNNGTC 1 cut(s) 455
PspFI CCCAGC 1 cut(s) 392
PspN4I GGNNCC 1 cut(s) 340
PspPI GGNCC 1 cut(s) 339
PsyI GACNNNGTC 1 cut(s) 455
RseI CAYNNNNRTG 1 cut(s) 137
SaqAI TTAA 3 cut(s) 56, 101, 122
Sau96I GGNCC 1 cut(s) 339
SetI ASST 9 cut(s) 15, 31, 67, 101, 226, 261, 271, 308, 406
SfaNI GCATC 1 cut(s) 351
SmiMI CAYNNNNRTG 1 cut(s) 137
Sse9I AATT 2 cut(s) 203, 332
SspMI CTAG 3 cut(s) 14, 45, 432
StyI CCWWGG 2 cut(s) 387, 418
TaaI ACNGT 1 cut(s) 455
TaqI TCGA 1 cut(s) 39
TasI AATT 2 cut(s) 203, 332
TfiI GAWTC 1 cut(s) 241
Tru1I TTAA 3 cut(s) 56, 101, 122
Tru9I TTAA 3 cut(s) 56, 101, 122
TseFI GTSAC 1 cut(s) 128
Tsp45I GTSAC 1 cut(s) 128
TspDTI ATGAA 5 cut(s) 129, 155, 176, 345, 390
Tth111I GACNNNGTC 1 cut(s) 455
XapI RAATTY 2 cut(s) 203, 332
XspI CTAG 3 cut(s) 14, 45, 432
Zsp2I ATGCAT 1 cut(s) 366
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.