Rmu_sc0004448.1_g000029

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004448.1
OG0000291
Physical Location & Seq
Reverse (-)
103229 .. 106948
3720 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0004448.1_g000029.1.cds

Sequence Viewer

Length: 1065 bp
atgtgtattggcgctcgcaatagagtaggctatcttactagagcagcagtcaagccaccagtcggagatcccaactatggtatgtgggtcactaacaaccacaaagtcaaaagttggcttattgattcaatgattccaatacttatgcaaaggtttattcgacttggcatcgctcgggagatttgggatgcggtttccaaaactttcaatgatagatctgatgaaactcggatttccgagttgagtcggaagtccttgactactctgcaaaatgggagacctctctctacatattacaatgaattgatcgccatttttcaagagattgatcataggtgtacaactcaagaagacacggtgagtggagaaaatttgcgcaaagagcccaaactagatcttaaggaacagatggcagcccaatttgaagaacagttggatcgtgctaaaggaggaaaacgaaaagtgactaatagacgcgaaacgggctttcggagtccgattgggacgtaccttacctttccagaaagggaatcgcgccagaaatcaaactcgttgcttggccacgacttgtggtctttttcgggctttcggggtcgtttagagcctcaaaactgcatttttctatttttcggtgttttgaatcctttgcttaggtttattgctgataaacctagatatcaatccatctgcgtcaggtggtatcagagcaggttttccctgtctctcctatttaccttggtagcaatgggtgaagttacaaaatcagatattaaagctctcacagcagcgtttaccgctgccatcaacaccatgaacaatcggatggaccagcagattggagaaatttgtgggttgttgggagagagaaacaaccacaacaacaacgatcggaatagaggcagggaaggaggccagcgagttagggctccacgtagagaggttgttgttcatacttcagaatctgagtctgaagaagagattgtgcaatatgaacacaaggacaagctgaccaagattacaaagtcaagggcgaaattcctttctttttgggcaacttgggtgtag
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

Protein Analysis

354

Amino Acids

40.89

Weight (kDa)

9.66

Isoelectric Point (pI)

37.54

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
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Orthologous Genes (Group: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 377
Acc36I ACCTGC 1 cut(s) 699
AccII CGCG 2 cut(s) 477, 535
AciI CCGC 2 cut(s) 191, 795
AclWI GGATC 2 cut(s) 62, 444
AcoI YGGCCR 1 cut(s) 559
AcsI RAATTY 3 cut(s) 370, 843, 1034
AcuI CTGAAG 2 cut(s) 939, 990
AfaI GTAC 2 cut(s) 340, 509
AfiI CCNNNNNNNGG 2 cut(s) 62, 77
AflII CTTAAG 1 cut(s) 398
AgsI TTSAA 5 cut(s) 129, 208, 320, 425, 640
AhdI GACNNNNNGTC 1 cut(s) 571
AluBI AGCT 2 cut(s) 776, 1006
AluI AGCT 2 cut(s) 776, 1006
Alw26I GTCTC 2 cut(s) 271, 726
AlwI GGATC 2 cut(s) 62, 444
AlwNI CAGNNNCTG 1 cut(s) 962
Ama87I CYCGRG 1 cut(s) 174
AoxI GGCC 2 cut(s) 559, 910
ApeKI GCWGC 4 cut(s) 44, 413, 785, 797
ApoI RAATTY 3 cut(s) 370, 843, 1034
AspLEI GCGC 3 cut(s) 14, 378, 537
AspS9I GGNCC 1 cut(s) 826
AsuHPI GGTGA 2 cut(s) 370, 761
AvaI CYCGRG 1 cut(s) 174
AvaII GGWCC 1 cut(s) 826
BalI TGGCCA 1 cut(s) 561
BanII GRGCYC 2 cut(s) 387, 928
BbsI GAAGAC 1 cut(s) 357
BbvI GCAGC 4 cut(s) 56, 425, 784, 797
BccI CCATC 4 cut(s) 403, 692, 809, 817
BclI TGATCA 1 cut(s) 328
BcoDI GTCTC 2 cut(s) 271, 726
BfaI CTAG 3 cut(s) 39, 392, 672
BfoI RGCGCY 1 cut(s) 15
BfrI CTTAAG 1 cut(s) 398
BfuAI ACCTGC 1 cut(s) 699
BglII AGATCT 2 cut(s) 215, 394
BisI GCNGC 4 cut(s) 45, 414, 786, 798
BlsI GCNGC 4 cut(s) 46, 415, 787, 799
Bme18I GGWCC 1 cut(s) 826
BmeRI GACNNNNNGTC 1 cut(s) 571
BmeT110I CYCGRG 1 cut(s) 174
BmgT120I GGNCC 1 cut(s) 826
BmiI GGNNCC 1 cut(s) 927
BmsI GCATC 2 cut(s) 177, 178
BpiI GAAGAC 1 cut(s) 357
Bpu10I CCTNAGC 1 cut(s) 650
BpuEI CTTGAG 1 cut(s) 330
BsaAI YACGTR 1 cut(s) 932
BsaBI GATNNNNATC 1 cut(s) 679
BsaI GGTCTC 1 cut(s) 271
BsaJI CCNNGG 1 cut(s) 735
Bsc4I CCNNNNNNNGG 2 cut(s) 62, 77
Bse1I ACTGG 1 cut(s) 59
Bse3DI GCAATG 1 cut(s) 750
Bse8I GATNNNNATC 1 cut(s) 679
BseDI CCNNGG 1 cut(s) 735
BseGI GGATG 2 cut(s) 193, 828
BseJI GATNNNNATC 1 cut(s) 679
BseLI CCNNNNNNNGG 2 cut(s) 62, 77
BseMI GCAATG 1 cut(s) 750
BseMII CTCAG 1 cut(s) 954
BseNI ACTGG 1 cut(s) 59
BseXI GCAGC 4 cut(s) 56, 425, 784, 797
Bsh1236I CGCG 2 cut(s) 477, 535
Bsh1285I CGRYCG 1 cut(s) 889
BshFI GGCC 2 cut(s) 561, 912
BsiEI CGRYCG 1 cut(s) 889
BsiHKCI CYCGRG 1 cut(s) 174
BslFI GGGAC 1 cut(s) 517
BslI CCNNNNNNNGG 2 cut(s) 62, 77
BsmAI GTCTC 2 cut(s) 271, 726
BsmFI GGGAC 1 cut(s) 517
BsnI GGCC 2 cut(s) 561, 912
Bso31I GGTCTC 1 cut(s) 271
BsoBI CYCGRG 1 cut(s) 174
Bsp1286I GDGCHC 2 cut(s) 387, 928
Bsp1407I TGTACA 1 cut(s) 338
Bsp143I GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
BspACI CCGC 2 cut(s) 191, 795
BspANI GGCC 2 cut(s) 561, 912
BspCNI CTCAG 1 cut(s) 955
BspFNI CGCG 2 cut(s) 477, 535
BspLI GGNNCC 1 cut(s) 927
BspMI ACCTGC 1 cut(s) 699
BspPI GGATC 2 cut(s) 62, 444
BspTI CTTAAG 1 cut(s) 398
BspTNI GGTCTC 1 cut(s) 271
BsrDI GCAATG 1 cut(s) 750
BsrGI TGTACA 1 cut(s) 338
BsrI ACTGG 1 cut(s) 59
BssECI CCNNGG 1 cut(s) 735
BssMI GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
BssT1I CCWWGG 1 cut(s) 735
Bst4CI ACNGT 2 cut(s) 358, 432
Bst6I CTCTTC 1 cut(s) 969
BstAFI CTTAAG 1 cut(s) 398
BstAUI TGTACA 1 cut(s) 338
BstBAI YACGTR 1 cut(s) 932
BstC8I GCNNGC 2 cut(s) 16, 914
BstDEI CTNAG 2 cut(s) 650, 963
BstF5I GGATG 2 cut(s) 193, 828
BstFNI CGCG 2 cut(s) 477, 535
BstH2I RGCGCY 1 cut(s) 15
BstHHI GCGC 3 cut(s) 14, 378, 537
BstKTI GATC 7 cut(s) 70, 218, 309, 331, 397, 439, 889
BstMAI GTCTC 2 cut(s) 271, 726
BstMBI GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
BstMCI CGRYCG 1 cut(s) 889
BstMWI GCNNNNNNNGC 4 cut(s) 382, 483, 782, 794
BstUI CGCG 2 cut(s) 477, 535
BstV1I GCAGC 4 cut(s) 56, 425, 784, 797
BstV2I GAAGAC 1 cut(s) 357
BstX2I RGATCY 3 cut(s) 67, 215, 394
BstXI CCANNNNNNTGG 1 cut(s) 836
BstYI RGATCY 3 cut(s) 67, 215, 394
BsuRI GGCC 2 cut(s) 561, 912
BtgZI GCGATG 1 cut(s) 154
BtsCI GGATG 2 cut(s) 193, 828
BveI ACCTGC 1 cut(s) 699
Cac8I GCNNGC 2 cut(s) 16, 914
CaiI CAGNNNCTG 1 cut(s) 962
CfoI GCGC 3 cut(s) 14, 378, 537
Cfr13I GGNCC 1 cut(s) 826
CseI GACGC 2 cut(s) 483, 679
Csp6I GTAC 2 cut(s) 339, 508
CviAII CATG 1 cut(s) 811
CviQI GTAC 2 cut(s) 339, 508
DdeI CTNAG 2 cut(s) 650, 963
DpnI GATC 7 cut(s) 69, 217, 308, 330, 396, 438, 888
DpnII GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
DriI GACNNNNNGTC 1 cut(s) 571
EaeI YGGCCR 1 cut(s) 559
Eam1104I CTCTTC 1 cut(s) 969
Eam1105I GACNNNNNGTC 1 cut(s) 571
EarI CTCTTC 1 cut(s) 969
Eco130I CCWWGG 1 cut(s) 735
Eco24I GRGCYC 2 cut(s) 387, 928
Eco31I GGTCTC 1 cut(s) 271
Eco32I GATATC 1 cut(s) 677
Eco47I GGWCC 1 cut(s) 826
Eco57I CTGAAG 2 cut(s) 939, 990
Eco88I CYCGRG 1 cut(s) 174
EcoRV GATATC 1 cut(s) 677
EcoT14I CCWWGG 1 cut(s) 735
EcoT38I GRGCYC 2 cut(s) 387, 928
ErhI CCWWGG 1 cut(s) 735
FaeI CATG 1 cut(s) 814
FaiI YATR 8 cut(s) 78, 83, 146, 292, 333, 812, 951, 990
FaqI GGGAC 1 cut(s) 517
FatI CATG 1 cut(s) 810
FbaI TGATCA 1 cut(s) 328
Fnu4HI GCNGC 4 cut(s) 45, 414, 786, 798
FokI GGATG 2 cut(s) 200, 835
FriOI GRGCYC 2 cut(s) 387, 928
Fsp4HI GCNGC 4 cut(s) 45, 414, 786, 798
FspBI CTAG 3 cut(s) 39, 392, 672
FspI TGCGCA 1 cut(s) 377
GlaI GCGC 3 cut(s) 13, 377, 536
GluI GCNGC 4 cut(s) 45, 414, 786, 798
HaeII RGCGCY 1 cut(s) 15
HaeIII GGCC 2 cut(s) 561, 912
HgaI GACGC 2 cut(s) 483, 679
HhaI GCGC 3 cut(s) 14, 378, 537
Hin1II CATG 1 cut(s) 814
Hin6I GCGC 3 cut(s) 12, 376, 535
HinP1I GCGC 3 cut(s) 12, 376, 535
HinfI GANTC 8 cut(s) 125, 133, 244, 493, 530, 640, 959, 965
HphI GGTGA 2 cut(s) 370, 761
Hpy166II GTNNAC 2 cut(s) 339, 792
Hpy188III TCNNGA 4 cut(s) 176, 320, 347, 521
Hpy8I GTNNAC 2 cut(s) 339, 792
HpyAV CCTTC 1 cut(s) 899
HpyCH4III ACNGT 2 cut(s) 358, 432
HpyCH4IV ACGT 2 cut(s) 506, 931
HpyCH4V TGCA 4 cut(s) 148, 268, 615, 985
HpyF10VI GCNNNNNNNGC 4 cut(s) 382, 483, 782, 794
HpyF3I CTNAG 2 cut(s) 650, 963
HpySE526I ACGT 2 cut(s) 506, 931
Hsp92II CATG 1 cut(s) 814
HspAI GCGC 3 cut(s) 12, 376, 535
Ksp22I TGATCA 1 cut(s) 328
Kzo9I GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
LmnI GCTCC 1 cut(s) 931
LpnPI CCDG 9 cut(s) 72, 534, 551, 679, 694, 731, 842, 886, 926
Lsp1109I GCAGC 4 cut(s) 56, 425, 784, 797
LweI GCATC 2 cut(s) 177, 178
MaeI CTAG 3 cut(s) 39, 392, 672
MaeII ACGT 2 cut(s) 506, 931
MaeIII GTNAC 3 cut(s) 88, 463, 754
MalI GATC 7 cut(s) 69, 217, 308, 330, 396, 438, 888
MboI GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
MboII GAAGA 4 cut(s) 362, 437, 983, 986
MflI RGATCY 3 cut(s) 67, 215, 394
MhlI GDGCHC 2 cut(s) 387, 928
MlsI TGGCCA 1 cut(s) 561
MluCI AATT 5 cut(s) 302, 370, 419, 843, 1034
MluNI TGGCCA 1 cut(s) 561
MlyI GAGTC 3 cut(s) 253, 502, 974
MmeI TCCRAC 3 cut(s) 43, 227, 414
MnlI CCTC 6 cut(s) 291, 443, 615, 890, 902, 931
Mox20I TGGCCA 1 cut(s) 561
MscI TGGCCA 1 cut(s) 561
MseI TTAA 2 cut(s) 399, 771
Msp20I TGGCCA 1 cut(s) 561
MspA1I CMGCKG 1 cut(s) 797
MspCI CTTAAG 1 cut(s) 398
MvnI CGCG 2 cut(s) 477, 535
MwoI GCNNNNNNNGC 4 cut(s) 382, 483, 782, 794
NdeII GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
NlaIII CATG 1 cut(s) 814
NlaIV GGNNCC 1 cut(s) 927
NmuCI GTSAC 2 cut(s) 88, 463
NsbI TGCGCA 1 cut(s) 377
PfeI GAWTC 5 cut(s) 125, 133, 530, 640, 959
PkrI GCNGC 4 cut(s) 46, 415, 787, 799
Ple19I CGATCG 1 cut(s) 889
PleI GAGTC 3 cut(s) 252, 501, 973
PpsI GAGTC 3 cut(s) 252, 501, 973
Ppu21I YACGTR 1 cut(s) 932
PspN4I GGNNCC 1 cut(s) 927
PspPI GGNCC 1 cut(s) 826
PstNI CAGNNNCTG 1 cut(s) 962
PsuI RGATCY 3 cut(s) 67, 215, 394
PvuI CGATCG 1 cut(s) 889
RsaI GTAC 2 cut(s) 340, 509
RsaNI GTAC 2 cut(s) 339, 508
SaqAI TTAA 2 cut(s) 399, 771
SatI GCNGC 4 cut(s) 45, 414, 786, 798
Sau3AI GATC 7 cut(s) 67, 215, 306, 328, 394, 436, 886
Sau96I GGNCC 1 cut(s) 826
SchI GAGTC 3 cut(s) 253, 502, 974
SduI GDGCHC 2 cut(s) 387, 928
SfaNI GCATC 2 cut(s) 177, 178
SinI GGWCC 1 cut(s) 826
SmlI CTYRAG 2 cut(s) 345, 398
SmoI CTYRAG 2 cut(s) 345, 398
Sse9I AATT 5 cut(s) 302, 370, 419, 843, 1034
SsiI CCGC 2 cut(s) 191, 795
SspMI CTAG 3 cut(s) 39, 392, 672
StyI CCWWGG 1 cut(s) 735
TaaI ACNGT 2 cut(s) 358, 432
TaiI ACGT 2 cut(s) 509, 934
TaqI TCGA 1 cut(s) 160
TasI AATT 5 cut(s) 302, 370, 419, 843, 1034
TatI WGTACW 1 cut(s) 338
TfiI GAWTC 5 cut(s) 125, 133, 530, 640, 959
Tru1I TTAA 2 cut(s) 399, 771
Tru9I TTAA 2 cut(s) 399, 771
TseFI GTSAC 2 cut(s) 88, 463
TseI GCWGC 4 cut(s) 44, 413, 785, 797
Tsp45I GTSAC 2 cut(s) 88, 463
TspDTI ATGAA 5 cut(s) 237, 315, 827, 938, 1005
Vha464I CTTAAG 1 cut(s) 398
VpaK11BI GGWCC 1 cut(s) 826
XapI RAATTY 3 cut(s) 370, 843, 1034
XspI CTAG 3 cut(s) 39, 392, 672
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.